
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/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_cnvarms_onlysig.2.4053/CNV2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_cnvarms_onlysig.2.4053/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/399202/broad_values_by_arm.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/SKCM-Regional_Metastatic/3157553/1.GDAC_mergedClustering.Finished/SKCM-Regional_Metastatic.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=SKCM-Regional_Metastatic", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"                          "-oT=SKCM-Regional_Metastatic"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=152, in cluster file=147, common to both=147
[1] "Reduce the number of clustering variables from 80 to 73."
[1]  73 147
[1] "1p gain mutation analysis"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               20               127 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               20               127 
[1] "1q gain mutation analysis"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               48                99 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               48                99 
[1] "2p gain mutation analysis"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               16               131 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               16               131 
[1] "2q gain mutation analysis"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               15               132 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               15               132 
[1] "3p gain mutation analysis"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               12               135 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               12               135 
[1] "3q gain mutation analysis"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               15               132 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               15               132 
[1] "4p gain mutation analysis"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               14               133 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               14               133 
[1] "4q gain mutation analysis"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               12               135 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               12               135 
[1] "5p gain mutation analysis"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               13               134 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               13               134 
[1] "5q gain mutation analysis"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                5               142 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                5               142 
[1] "6p gain mutation analysis"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               45               102 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               45               102 
[1] "6q gain mutation analysis"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                9               138 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                9               138 
[1] "7p gain mutation analysis"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               63                84 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               63                84 
[1] "7q gain mutation analysis"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               62                85 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               62                85 
[1] "8p gain mutation analysis"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               29               118 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               29               118 
[1] "8q gain mutation analysis"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               46               101 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               46               101 
[1] "9p gain mutation analysis"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                3               144 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                3               144 
[1] "9q gain mutation analysis"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                3               144 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                3               144 
[1] "11p gain mutation analysis"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 9                138 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 9                138 
[1] "11q gain mutation analysis"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                141 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 6                141 
[1] "12p gain mutation analysis"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                16                131 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                16                131 
[1] "12q gain mutation analysis"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 7                140 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 7                140 
[1] "13q gain mutation analysis"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                21                126 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                21                126 
[1] "14q gain mutation analysis"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                12                135 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                12                135 
[1] "15q gain mutation analysis"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                21                126 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                21                126 
[1] "16p gain mutation analysis"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                12                135 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                12                135 
[1] "16q gain mutation analysis"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                10                137 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                10                137 
[1] "17p gain mutation analysis"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                13                134 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                13                134 
[1] "17q gain mutation analysis"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                21                126 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                21                126 
[1] "18p gain mutation analysis"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                19                128 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                19                128 
[1] "18q gain mutation analysis"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                10                137 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                10                137 
[1] "19p gain mutation analysis"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 7                140 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 7                140 
[1] "19q gain mutation analysis"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                11                136 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                11                136 
[1] "20p gain mutation analysis"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                43                104 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                43                104 
[1] "20q gain mutation analysis"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                53                 94 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                53                 94 
[1] "21q gain mutation analysis"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                17                130 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                17                130 
[1] "22q gain mutation analysis"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                37                110 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                37                110 
[1] "1p loss mutation analysis"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               12               135 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               12               135 
[1] "1q loss mutation analysis"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                4               143 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                4               143 
[1] "2p loss mutation analysis"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               14               133 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               14               133 
[1] "2q loss mutation analysis"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               13               134 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               13               134 
[1] "3p loss mutation analysis"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               10               137 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               10               137 
[1] "3q loss mutation analysis"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               12               135 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               12               135 
[1] "4p loss mutation analysis"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               15               132 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               15               132 
[1] "4q loss mutation analysis"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               16               131 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               16               131 
[1] "5p loss mutation analysis"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               18               129 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               18               129 
[1] "5q loss mutation analysis"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               31               116 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               31               116 
[1] "6p loss mutation analysis"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               11               136 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               11               136 
[1] "6q loss mutation analysis"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               53                94 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               53                94 
[1] "8p loss mutation analysis"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               16               131 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               16               131 
[1] "9p loss mutation analysis"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               82                65 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               82                65 
[1] "9q loss mutation analysis"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               61                86 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               61                86 
[1] "10p loss mutation analysis"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                64                 83 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                64                 83 
[1] "10q loss mutation analysis"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                71                 76 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                71                 76 
[1] "11p loss mutation analysis"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                35                112 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                35                112 
[1] "11q loss mutation analysis"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                39                108 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                39                108 
[1] "12p loss mutation analysis"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 8                139 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 8                139 
[1] "12q loss mutation analysis"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                15                132 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                15                132 
[1] "13q loss mutation analysis"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                23                124 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                23                124 
[1] "14q loss mutation analysis"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                35                112 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                35                112 
[1] "15q loss mutation analysis"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                12                135 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                12                135 
[1] "16p loss mutation analysis"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                138 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                138 
[1] "16q loss mutation analysis"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                20                127 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                20                127 
[1] "17p loss mutation analysis"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                33                114 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                33                114 
[1] "17q loss mutation analysis"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                12                135 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                12                135 
[1] "18p loss mutation analysis"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                26                121 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                26                121 
[1] "18q loss mutation analysis"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                24                123 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                24                123 
[1] "19p loss mutation analysis"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                14                133 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                14                133 
[1] "19q loss mutation analysis"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                15                132 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                15                132 
[1] "20p loss mutation analysis"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 6                141 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 6                141 
[1] "21q loss mutation analysis"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                18                129 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                18                129 
[1] "22q loss mutation analysis"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                12                135 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                12                135 
[1] "Xq loss mutation analysis"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                4               143 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                4               143 
[1] "data2feature, selection=ALL"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "RPPA_CNMF"            
[4] "RPPA_CHIERARCHICAL"    "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL"
[7] "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 

Input Data has 8 rows and 147 columns.

Variable 1:'CN_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "RPPA_CNMF"            
[4] "RPPA_CHIERARCHICAL"    "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL"
[7] "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 147 columns, 0 survival variables, and 8 non-survival variables.
CN_CNMF, nv=4, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1p gain mutation analysis
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                20
  CLUS_2               2                24
  CLUS_3               6                35
  CLUS_4               8                48
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                36
  CLUS_2               7                50
  CLUS_3               9                41
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                17
  CLUS_2               5                31
  CLUS_3               5                32
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               4                22
  CLUS_3               5                29
  CLUS_4               1                18
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                51
  CLUS_2               3                35
  CLUS_3              11                40
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                43
  CLUS_2               7                57
  CLUS_3               7                26
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               8                48
  CLUS_2               4                25
  CLUS_3               8                51
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                28
  CLUS_2               2                16
  CLUS_3              14                80

Clustering(2) Variable = 1q gain mutation analysis
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              17                 7
  CLUS_2               6                20
  CLUS_3              10                31
  CLUS_4              15                41
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              20                20
  CLUS_2              16                41
  CLUS_3              12                38
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               9                13
  CLUS_2               9                27
  CLUS_3              12                25
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               8                 8
  CLUS_2               9                17
  CLUS_3               9                25
  CLUS_4               4                15
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              18                38
  CLUS_2               8                30
  CLUS_3              21                30
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              16                32
  CLUS_2              20                44
  CLUS_3              11                22
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              20                36
  CLUS_2              10                19
  CLUS_3              17                42
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               8                24
  CLUS_2               5                13
  CLUS_3              34                60

Clustering(3) Variable = 2p gain mutation analysis
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               5                19
  CLUS_2               4                22
  CLUS_3               4                37
  CLUS_4               3                53
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               6                34
  CLUS_2               6                51
  CLUS_3               4                46
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                18
  CLUS_2               2                34
  CLUS_3               4                33
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                12
  CLUS_2               2                24
  CLUS_3               2                32
  CLUS_4               2                17
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               6                50
  CLUS_2               3                35
  CLUS_3               7                44
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               6                42
  CLUS_2               7                57
  CLUS_3               3                30
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               6                50
  CLUS_2               2                27
  CLUS_3               7                52
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               5                27
  CLUS_2               2                16
  CLUS_3               8                86

Clustering(4) Variable = 2q gain mutation analysis
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5                19
  CLUS_2               4                22
  CLUS_3               3                38
  CLUS_4               3                53
D4V2, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5                35
  CLUS_2               6                51
  CLUS_3               4                46
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4                18
  CLUS_2               2                34
  CLUS_3               4                33
D4V4, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4                12
  CLUS_2               2                24
  CLUS_3               2                32
  CLUS_4               2                17
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               6                50
  CLUS_2               3                35
  CLUS_3               6                45
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               6                42
  CLUS_2               7                57
  CLUS_3               2                31
D4V7, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5                51
  CLUS_2               2                27
  CLUS_3               7                52
D4V8, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5                27
  CLUS_2               2                16
  CLUS_3               7                87

Clustering(5) Variable = 3p gain mutation analysis
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                19
  CLUS_2               5                21
  CLUS_3               1                40
  CLUS_4               1                55
D5V2, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               6                34
  CLUS_2               3                54
  CLUS_3               3                47
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2               3                33
  CLUS_3               1                36
D5V4, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               2                14
  CLUS_2               1                25
  CLUS_3               3                31
  CLUS_4               1                18
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               8                48
  CLUS_2               1                37
  CLUS_3               2                49
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                43
  CLUS_2               3                61
  CLUS_3               3                30
D5V7, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                52
  CLUS_2               2                27
  CLUS_3               6                53
D5V8, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                29
  CLUS_2               1                17
  CLUS_3               8                86

Clustering(6) Variable = 3q gain mutation analysis
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               4                20
  CLUS_2               7                19
  CLUS_3               2                39
  CLUS_4               2                54
D6V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               6                34
  CLUS_2               6                51
  CLUS_3               3                47
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               5                17
  CLUS_2               3                33
  CLUS_3               1                36
D6V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               2                24
  CLUS_3               2                32
  CLUS_4               2                17
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              11                45
  CLUS_2               3                35
  CLUS_3               0                51
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               7                41
  CLUS_2               6                58
  CLUS_3               1                32
D6V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               4                52
  CLUS_2               4                25
  CLUS_3               7                52
D6V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               5                27
  CLUS_2               2                16
  CLUS_3               8                86

Clustering(7) Variable = 4p gain mutation analysis
D7V1, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               4                20
  CLUS_2               2                24
  CLUS_3               7                34
  CLUS_4               1                55
D7V2, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               6                34
  CLUS_2               2                55
  CLUS_3               6                44
D7V3, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               6                30
  CLUS_3               2                35
D7V4, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               1                25
  CLUS_3               5                29
  CLUS_4               2                17
D7V5, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               5                51
  CLUS_2               3                35
  CLUS_3               5                46
D7V6, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                46
  CLUS_2               6                58
  CLUS_3               5                28
D7V7, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               4                52
  CLUS_2               5                24
  CLUS_3               5                54
D7V8, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               2                16
  CLUS_3              10                84

Clustering(8) Variable = 4q gain mutation analysis
D8V1, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3                21
  CLUS_2               2                24
  CLUS_3               7                34
  CLUS_4               0                56
D8V2, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               4                36
  CLUS_2               1                56
  CLUS_3               7                43
D8V3, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               5                31
  CLUS_3               1                36
D8V4, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               1                25
  CLUS_3               3                31
  CLUS_4               2                17
D8V5, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               4                52
  CLUS_2               2                36
  CLUS_3               6                45
D8V6, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               2                46
  CLUS_2               5                59
  CLUS_3               5                28
D8V7, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               4                52
  CLUS_2               5                24
  CLUS_3               3                56
D8V8, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               2                16
  CLUS_3               8                86

Clustering(9) Variable = 5p gain mutation analysis
D9V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                24
  CLUS_2               8                18
  CLUS_3               3                38
  CLUS_4               2                54
D9V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                38
  CLUS_2               5                52
  CLUS_3               6                44
D9V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2               4                32
  CLUS_3               3                34
D9V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                24
  CLUS_3               4                30
  CLUS_4               3                16
D9V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               6                50
  CLUS_2               3                35
  CLUS_3               4                47
D9V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               4                44
  CLUS_2               7                57
  CLUS_3               2                31
D9V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               4                52
  CLUS_2               5                24
  CLUS_3               4                55
D9V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               3                29
  CLUS_2               2                16
  CLUS_3               8                86

Clustering(10) Variable = 5q gain mutation analysis
D10V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                24
  CLUS_2               2                24
  CLUS_3               3                38
  CLUS_4               0                56
D10V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                38
  CLUS_2               1                56
  CLUS_3               2                48
D10V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               3                33
  CLUS_3               1                36
D10V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                16
  CLUS_2               1                25
  CLUS_3               2                32
  CLUS_4               2                17
D10V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                53
  CLUS_2               1                37
  CLUS_3               1                50
D10V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                46
  CLUS_2               3                61
  CLUS_3               0                33
D10V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                53
  CLUS_2               1                28
  CLUS_3               1                58
D10V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3               4                90

Clustering(11) Variable = 6p gain mutation analysis
D11V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              13                11
  CLUS_2               4                22
  CLUS_3              18                23
  CLUS_4              10                46
D11V2, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              16                24
  CLUS_2              13                44
  CLUS_3              16                34
D11V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               6                16
  CLUS_2              16                20
  CLUS_3              12                25
D11V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               9                17
  CLUS_3              12                22
  CLUS_4               8                11
D11V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              19                37
  CLUS_2              10                28
  CLUS_3              16                35
D11V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              14                34
  CLUS_2              20                44
  CLUS_3              11                22
D11V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              22                34
  CLUS_2               7                22
  CLUS_3              16                43
D11V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                27
  CLUS_2               5                13
  CLUS_3              35                59

Clustering(12) Variable = 6q gain mutation analysis
D12V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                23
  CLUS_2               2                24
  CLUS_3               3                38
  CLUS_4               3                53
D12V2, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                36
  CLUS_2               5                52
  CLUS_3               0                50
D12V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               4                32
  CLUS_3               2                35
D12V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                24
  CLUS_3               3                31
  CLUS_4               1                18
D12V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               5                51
  CLUS_2               2                36
  CLUS_3               2                49
D12V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                44
  CLUS_2               5                59
  CLUS_3               0                33
D12V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3                53
  CLUS_2               1                28
  CLUS_3               5                54
D12V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               1                17
  CLUS_3               7                87

Clustering(13) Variable = 7p gain mutation analysis
D13V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              10                14
  CLUS_2              18                 8
  CLUS_3              23                18
  CLUS_4              12                44
D13V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              18                22
  CLUS_2              21                36
  CLUS_3              24                26
D13V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              14                 8
  CLUS_2              16                20
  CLUS_3              14                23
D13V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              11                 5
  CLUS_2              11                15
  CLUS_3              12                22
  CLUS_4              10                 9
D13V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              30                26
  CLUS_2              11                27
  CLUS_3              22                29
D13V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              24                24
  CLUS_2              24                40
  CLUS_3              15                18
D13V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              25                31
  CLUS_2              15                14
  CLUS_3              23                36
D13V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              13                19
  CLUS_2               9                 9
  CLUS_3              41                53

Clustering(14) Variable = 7q gain mutation analysis
D14V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               6                18
  CLUS_2              20                 6
  CLUS_3              23                18
  CLUS_4              13                43
D14V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              18                22
  CLUS_2              23                34
  CLUS_3              21                29
D14V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              14                 8
  CLUS_2              14                22
  CLUS_3              13                24
D14V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              11                 5
  CLUS_2               9                17
  CLUS_3              11                23
  CLUS_4              10                 9
D14V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              31                25
  CLUS_2              13                25
  CLUS_3              18                33
D14V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              25                23
  CLUS_2              24                40
  CLUS_3              13                20
D14V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              21                35
  CLUS_2              18                11
  CLUS_3              23                36
D14V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              14                18
  CLUS_2              11                 7
  CLUS_3              37                57

Clustering(15) Variable = 8p gain mutation analysis
D15V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               5                19
  CLUS_2              10                16
  CLUS_3              13                28
  CLUS_4               1                55
D15V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              15                25
  CLUS_2               6                51
  CLUS_3               8                42
D15V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               7                15
  CLUS_2               7                29
  CLUS_3               5                32
D15V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               7                 9
  CLUS_2               5                21
  CLUS_3               6                28
  CLUS_4               1                18
D15V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              20                36
  CLUS_2               2                36
  CLUS_3               7                44
D15V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              16                32
  CLUS_2               5                59
  CLUS_3               8                25
D15V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               7                49
  CLUS_2               5                24
  CLUS_3              17                42
D15V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              10                22
  CLUS_2               1                17
  CLUS_3              18                76

Clustering(16) Variable = 8q gain mutation analysis
D16V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              12                12
  CLUS_2              12                14
  CLUS_3              18                23
  CLUS_4               4                52
D16V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              24                16
  CLUS_2              11                46
  CLUS_3              11                39
D16V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              10                12
  CLUS_2               9                27
  CLUS_3              10                27
D16V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               9                 7
  CLUS_2               7                19
  CLUS_3               8                26
  CLUS_4               5                14
D16V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              28                28
  CLUS_2               3                35
  CLUS_3              14                37
D16V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              22                26
  CLUS_2              12                52
  CLUS_3              11                22
D16V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              14                42
  CLUS_2               8                21
  CLUS_3              24                35
D16V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              13                19
  CLUS_2               3                15
  CLUS_3              30                64

Clustering(17) Variable = 9p gain mutation analysis
D17V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                22
  CLUS_2               1                25
  CLUS_3               0                41
  CLUS_4               0                56
D17V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                38
  CLUS_2               0                57
  CLUS_3               1                49
D17V3, multiclass
[1] "Remove cluster labels:" "9P GAIN MUTATED"       
clus
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                2                93 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2JD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-DA-A1HV        TCGA-DA-A1HW        TCGA-DA-A1HY 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-EE-A17X        TCGA-EE-A181        TCGA-EE-A185 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29E        TCGA-EE-A29H 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29R 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A2A0        TCGA-EE-A2A2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GC        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-ER-A19D        TCGA-ER-A19F 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19N        TCGA-ER-A19O 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FS-A1YW        TCGA-FS-A1Z4        TCGA-FS-A1ZD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZM        TCGA-FS-A1ZP 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9P GAIN WILD-TYPE" 
D17V4, multiclass
[1] "Remove cluster labels:" "9P GAIN MUTATED"       
clus
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                2                93 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2JD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-DA-A1HV        TCGA-DA-A1HW        TCGA-DA-A1HY 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-EE-A17X        TCGA-EE-A181        TCGA-EE-A185 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29E        TCGA-EE-A29H 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29R 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A2A0        TCGA-EE-A2A2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GC        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MR 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-ER-A19D        TCGA-ER-A19F 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19N        TCGA-ER-A19O 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FS-A1YW        TCGA-FS-A1Z4        TCGA-FS-A1ZD 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZM        TCGA-FS-A1ZP 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9P GAIN WILD-TYPE" 
D17V5, multiclass
[1] "Remove cluster labels:" "9P GAIN MUTATED"       
clus
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                2               143 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO        TCGA-D3-A3MV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW        TCGA-D9-A1JX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV        TCGA-DA-A1HW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1        TCGA-DA-A1I2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A17X        TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A185        TCGA-EE-A20B        TCGA-EE-A20F        TCGA-EE-A29C 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29D        TCGA-EE-A29E        TCGA-EE-A29H        TCGA-EE-A29L 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29Q        TCGA-EE-A29R 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A29X        TCGA-EE-A2A0 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A5        TCGA-EE-A2A6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GB        TCGA-EE-A2GC        TCGA-EE-A2GD        TCGA-EE-A2GE 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GH        TCGA-EE-A2GI        TCGA-EE-A2GJ        TCGA-EE-A2GK 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GL        TCGA-EE-A2GM        TCGA-EE-A2GN        TCGA-EE-A2GO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GP        TCGA-EE-A2GR        TCGA-EE-A2GS        TCGA-EE-A2GT 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GU        TCGA-EE-A2M5        TCGA-EE-A2M6        TCGA-EE-A2M7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD        TCGA-EE-A2ME 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MG        TCGA-EE-A2MH        TCGA-EE-A2MI        TCGA-EE-A2MJ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MK        TCGA-EE-A2ML        TCGA-EE-A2MM        TCGA-EE-A2MN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MP        TCGA-EE-A2MQ        TCGA-EE-A2MR        TCGA-EE-A2MS 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA        TCGA-EE-A3AB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE        TCGA-EE-A3AF 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AG        TCGA-EE-A3AH        TCGA-ER-A19D        TCGA-ER-A19F 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19O        TCGA-ER-A1A1        TCGA-ER-A3PL        TCGA-FR-A3YN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FR-A44A        TCGA-FS-A1YW        TCGA-FS-A1YX        TCGA-FS-A1Z4 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1Z7        TCGA-FS-A1ZD        TCGA-FS-A1ZG        TCGA-FS-A1ZH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZM        TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZW        TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FW-A3R5        TCGA-FW-A3TV        TCGA-GN-A261        TCGA-GN-A262 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A264        TCGA-GN-A265        TCGA-GN-A266        TCGA-GN-A267 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A268        TCGA-GN-A26A        TCGA-GN-A26D 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
D17V6, multiclass
[1] "Remove cluster labels:" "9P GAIN MUTATED"       
clus
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                2               143 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO        TCGA-D3-A3MV 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW        TCGA-D9-A1JX 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV        TCGA-DA-A1HW 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1        TCGA-DA-A1I2 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-DA-A3F3        TCGA-DA-A3F5        TCGA-DA-A3F8 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A17X        TCGA-EE-A17Z        TCGA-EE-A181        TCGA-EE-A183 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A185        TCGA-EE-A20B        TCGA-EE-A20F        TCGA-EE-A29C 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29D        TCGA-EE-A29E        TCGA-EE-A29H        TCGA-EE-A29L 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29Q        TCGA-EE-A29R 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A29X        TCGA-EE-A2A0 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A5        TCGA-EE-A2A6 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GB        TCGA-EE-A2GC        TCGA-EE-A2GD        TCGA-EE-A2GE 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GH        TCGA-EE-A2GI        TCGA-EE-A2GJ        TCGA-EE-A2GK 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GL        TCGA-EE-A2GM        TCGA-EE-A2GN        TCGA-EE-A2GO 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GP        TCGA-EE-A2GR        TCGA-EE-A2GS        TCGA-EE-A2GT 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2GU        TCGA-EE-A2M5        TCGA-EE-A2M6        TCGA-EE-A2M7 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD        TCGA-EE-A2ME 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MG        TCGA-EE-A2MH        TCGA-EE-A2MI        TCGA-EE-A2MJ 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MK        TCGA-EE-A2ML        TCGA-EE-A2MM        TCGA-EE-A2MN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MP        TCGA-EE-A2MQ        TCGA-EE-A2MR        TCGA-EE-A2MS 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA        TCGA-EE-A3AB 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE        TCGA-EE-A3AF 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-EE-A3AG        TCGA-EE-A3AH        TCGA-ER-A19D        TCGA-ER-A19F 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M        TCGA-ER-A19N 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-ER-A19O        TCGA-ER-A1A1        TCGA-ER-A3PL        TCGA-FR-A3YN 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FR-A44A        TCGA-FS-A1YW        TCGA-FS-A1YX        TCGA-FS-A1Z4 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1Z7        TCGA-FS-A1ZD        TCGA-FS-A1ZG        TCGA-FS-A1ZH 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZM        TCGA-FS-A1ZP        TCGA-FS-A1ZR        TCGA-FS-A1ZS 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FS-A1ZW        TCGA-FS-A4F0        TCGA-FS-A4F9        TCGA-FS-A4FC 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-FW-A3R5        TCGA-FW-A3TV        TCGA-GN-A261        TCGA-GN-A262 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A264        TCGA-GN-A265        TCGA-GN-A266        TCGA-GN-A267 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-GN-A268        TCGA-GN-A26A        TCGA-GN-A26D 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
D17V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                55
  CLUS_2               1                28
  CLUS_3               1                58
D17V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0                32
  CLUS_2               1                17
  CLUS_3               2                92

Clustering(18) Variable = 9q gain mutation analysis
D18V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                23
  CLUS_2               1                25
  CLUS_3               0                41
  CLUS_4               1                55
D18V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               1                56
  CLUS_3               1                49
D18V3, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                2                93 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2JD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-DA-A1HV        TCGA-DA-A1HW        TCGA-DA-A1HY 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-EE-A17X        TCGA-EE-A181        TCGA-EE-A185 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29E        TCGA-EE-A29H 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29R 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A2A0        TCGA-EE-A2A2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GC        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-ER-A19D        TCGA-ER-A19F 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19N        TCGA-ER-A19O 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FS-A1YW        TCGA-FS-A1Z4        TCGA-FS-A1ZD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZM        TCGA-FS-A1ZP 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9Q GAIN WILD-TYPE" 
D18V4, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                2                93 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2JD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A1JX        TCGA-DA-A1HV        TCGA-DA-A1HW        TCGA-DA-A1HY 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-EE-A17X        TCGA-EE-A181        TCGA-EE-A185 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29E        TCGA-EE-A29H 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29R 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A2A0        TCGA-EE-A2A2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GC        TCGA-EE-A2GH        TCGA-EE-A2GI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GP        TCGA-EE-A2GR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-ER-A19D        TCGA-ER-A19F 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19N        TCGA-ER-A19O 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FS-A1YW        TCGA-FS-A1Z4        TCGA-FS-A1ZD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZM        TCGA-FS-A1ZP 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264        TCGA-GN-A265 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268        TCGA-GN-A26A 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A26D 
"9Q GAIN WILD-TYPE" 
D18V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0                56
  CLUS_2               1                37
  CLUS_3               2                49
D18V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0                48
  CLUS_2               2                62
  CLUS_3               1                32
D18V7, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                2               142 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO        TCGA-D3-A3MV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW        TCGA-D9-A1JX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV        TCGA-DA-A1HW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1        TCGA-DA-A1I2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3        TCGA-DA-A3F5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z        TCGA-EE-A181 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B        TCGA-EE-A20F 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E        TCGA-EE-A29H 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29Q 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A29X 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC        TCGA-EE-A2GD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI        TCGA-EE-A2GJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM        TCGA-EE-A2GN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR        TCGA-EE-A2GS 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5        TCGA-EE-A2M6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH        TCGA-EE-A2MI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML        TCGA-EE-A2MM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ        TCGA-EE-A2MR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH        TCGA-ER-A19D 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19N        TCGA-ER-A19O        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FS-A1YW        TCGA-FS-A1YX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD        TCGA-FS-A1ZG 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZH        TCGA-FS-A1ZM        TCGA-FS-A1ZP        TCGA-FS-A1ZR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZS        TCGA-FS-A1ZW        TCGA-FS-A4F0        TCGA-FW-A3R5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FW-A3TV        TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A265        TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A26A        TCGA-GN-A26D 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
D18V8, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                2               142 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A2J6        TCGA-D3-A2J8        TCGA-D3-A2J9 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A2JK        TCGA-D3-A3C6        TCGA-D3-A3CC 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D3-A3CE        TCGA-D3-A3CF        TCGA-D3-A3MO        TCGA-D3-A3MV 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A148        TCGA-D9-A149        TCGA-D9-A1JW        TCGA-D9-A1JX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-D9-A3Z1        TCGA-D9-A3Z3        TCGA-DA-A1HV        TCGA-DA-A1HW 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1HY        TCGA-DA-A1I0        TCGA-DA-A1I1        TCGA-DA-A1I2 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1I4        TCGA-DA-A1I7        TCGA-DA-A1I8        TCGA-DA-A1IB 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-DA-A3F2        TCGA-DA-A3F3        TCGA-DA-A3F5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-DA-A3F8        TCGA-EE-A17X        TCGA-EE-A17Z        TCGA-EE-A181 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A183        TCGA-EE-A185        TCGA-EE-A20B        TCGA-EE-A20F 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29C        TCGA-EE-A29D        TCGA-EE-A29E        TCGA-EE-A29H 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29Q 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A29R        TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A29X 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A0        TCGA-EE-A2A1        TCGA-EE-A2A2        TCGA-EE-A2A5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GB        TCGA-EE-A2GC        TCGA-EE-A2GD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GE        TCGA-EE-A2GH        TCGA-EE-A2GI        TCGA-EE-A2GJ 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GM        TCGA-EE-A2GN 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GO        TCGA-EE-A2GP        TCGA-EE-A2GR        TCGA-EE-A2GS 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5        TCGA-EE-A2M6 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2M7        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2ME        TCGA-EE-A2MG        TCGA-EE-A2MH        TCGA-EE-A2MI 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML        TCGA-EE-A2MM 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MQ        TCGA-EE-A2MR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-EE-A3AH        TCGA-ER-A19D 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19F        TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19M 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A19N        TCGA-ER-A19O        TCGA-ER-A1A1        TCGA-ER-A3ET 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-ER-A3PL        TCGA-FR-A3YN        TCGA-FS-A1YW        TCGA-FS-A1YX 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1Z4        TCGA-FS-A1Z7        TCGA-FS-A1ZD        TCGA-FS-A1ZG 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZH        TCGA-FS-A1ZM        TCGA-FS-A1ZP        TCGA-FS-A1ZR 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FS-A1ZS        TCGA-FS-A1ZW        TCGA-FS-A4F0        TCGA-FW-A3R5 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-FW-A3TV        TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A265        TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-GN-A26A        TCGA-GN-A26D 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 

Clustering(19) Variable = 11p gain mutation analysis
D19V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                1                 25
  CLUS_3                6                 35
  CLUS_4                1                 55
D19V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                5                 35
  CLUS_2                3                 54
  CLUS_3                1                 49
D19V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                3                 33
  CLUS_3                0                 37
D19V4, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 24
  CLUS_3                1                 33
  CLUS_4                1                 18
D19V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                7                 49
  CLUS_2                1                 37
  CLUS_3                1                 50
D19V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                 44
  CLUS_2                4                 60
  CLUS_3                1                 32
D19V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 55
  CLUS_2                2                 27
  CLUS_3                6                 53
D19V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                6                 26
  CLUS_2                1                 17
  CLUS_3                2                 92

Clustering(20) Variable = 11q gain mutation analysis
D20V1, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                0                 26
  CLUS_3                5                 36
  CLUS_4                0                 56
D20V2, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 35
  CLUS_2                1                 56
  CLUS_3                0                 50
D20V3, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                3                 33
  CLUS_3                0                 37
D20V4, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 24
  CLUS_3                1                 33
  CLUS_4                0                 19
D20V5, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 51
  CLUS_2                1                 37
  CLUS_3                0                 51
D20V6, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                3                 45
  CLUS_2                2                 62
  CLUS_3                1                 32
D20V7, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 55
  CLUS_2                1                 28
  CLUS_3                4                 55
D20V8, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                2                 92

Clustering(21) Variable = 12p gain mutation analysis
D21V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                9                 17
  CLUS_3                6                 35
  CLUS_4                0                 56
D21V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                7                 33
  CLUS_2                5                 52
  CLUS_3                4                 46
D21V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                4                 32
  CLUS_3                3                 34
D21V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 24
  CLUS_3                3                 31
  CLUS_4                2                 17
D21V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               13                 43
  CLUS_2                1                 37
  CLUS_3                2                 49
D21V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               10                 38
  CLUS_2                4                 60
  CLUS_3                2                 31
D21V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                6                 23
  CLUS_3                7                 52
D21V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                6                 26
  CLUS_2                3                 15
  CLUS_3                7                 87

Clustering(22) Variable = 12q gain mutation analysis
D22V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                0                 24
  CLUS_2                5                 21
  CLUS_3                2                 39
  CLUS_4                0                 56
D22V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                4                 53
  CLUS_3                2                 48
D22V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                1                 35
  CLUS_3                2                 35
D22V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                0                 26
  CLUS_3                1                 33
  CLUS_4                2                 17
D22V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                1                 37
  CLUS_3                2                 49
D22V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                4                 44
  CLUS_2                3                 61
  CLUS_3                0                 33
D22V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 55
  CLUS_2                3                 26
  CLUS_3                3                 56
D22V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                2                 16
  CLUS_3                2                 92

Clustering(23) Variable = 13q gain mutation analysis
D23V1, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                6                 18
  CLUS_2                5                 21
  CLUS_3               10                 31
  CLUS_4                0                 56
D23V2, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               13                 27
  CLUS_2                2                 55
  CLUS_3                6                 44
D23V3, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                6                 30
  CLUS_3                2                 35
D23V4, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                2                 24
  CLUS_3                5                 29
  CLUS_4                1                 18
D23V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               12                 44
  CLUS_2                2                 36
  CLUS_3                7                 44
D23V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               10                 38
  CLUS_2                6                 58
  CLUS_3                5                 28
D23V7, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                3                 26
  CLUS_3                9                 50
D23V8, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                2                 16
  CLUS_3               15                 79

Clustering(24) Variable = 14q gain mutation analysis
D24V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                7                 19
  CLUS_3                2                 39
  CLUS_4                2                 54
D24V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                6                 34
  CLUS_2                2                 55
  CLUS_3                4                 46
D24V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 22
  CLUS_2                3                 33
  CLUS_3                5                 32
D24V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                1                 25
  CLUS_3                5                 29
  CLUS_4                2                 17
D24V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                2                 36
  CLUS_3                4                 47
D24V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                5                 43
  CLUS_2                4                 60
  CLUS_3                3                 30
D24V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                2                 27
  CLUS_3                6                 53
D24V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                1                 17
  CLUS_3                8                 86

Clustering(25) Variable = 15q gain mutation analysis
D25V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 23
  CLUS_2               12                 14
  CLUS_3                4                 37
  CLUS_4                4                 52
D25V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                7                 33
  CLUS_2                8                 49
  CLUS_3                6                 44
D25V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                 22
  CLUS_2                7                 29
  CLUS_3                3                 34
D25V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                4                 22
  CLUS_3                4                 30
  CLUS_4                2                 17
D25V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                5                 33
  CLUS_3                7                 44
D25V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                8                 40
  CLUS_2               10                 54
  CLUS_3                3                 30
D25V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                6                 23
  CLUS_3                8                 51
D25V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                8                 24
  CLUS_2                2                 16
  CLUS_3               10                 84

Clustering(26) Variable = 16p gain mutation analysis
D26V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 21
  CLUS_2                4                 22
  CLUS_3                4                 37
  CLUS_4                1                 55
D26V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                6                 34
  CLUS_2                2                 55
  CLUS_3                4                 46
D26V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                3                 33
  CLUS_3                1                 36
D26V4, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 24
  CLUS_3                3                 31
  CLUS_4                0                 19
D26V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                1                 37
  CLUS_3                2                 49
D26V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                8                 40
  CLUS_2                3                 61
  CLUS_3                1                 32
D26V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                3                 26
  CLUS_3                6                 53
D26V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                1                 17
  CLUS_3                6                 88

Clustering(27) Variable = 16q gain mutation analysis
D27V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 21
  CLUS_2                3                 23
  CLUS_3                4                 37
  CLUS_4                0                 56
D27V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                3                 54
  CLUS_3                3                 47
D27V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                2                 34
  CLUS_3                1                 36
D27V4, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 24
  CLUS_3                2                 32
  CLUS_4                0                 19
D27V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                7                 49
  CLUS_2                1                 37
  CLUS_3                2                 49
D27V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                6                 42
  CLUS_2                3                 61
  CLUS_3                1                 32
D27V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 55
  CLUS_2                4                 25
  CLUS_3                5                 54
D27V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                2                 16
  CLUS_3                3                 91

Clustering(28) Variable = 17p gain mutation analysis
D28V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                5                 21
  CLUS_3                6                 35
  CLUS_4                1                 55
D28V2, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                7                 33
  CLUS_2                3                 54
  CLUS_3                3                 47
D28V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                5                 31
  CLUS_3                2                 35
D28V4, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 23
  CLUS_3                1                 33
  CLUS_4                4                 15
D28V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                7                 49
  CLUS_2                4                 34
  CLUS_3                2                 49
D28V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                7                 41
  CLUS_2                4                 60
  CLUS_3                2                 31
D28V7, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                5                 24
  CLUS_3                4                 55
D28V8, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                3                 15
  CLUS_3                6                 88

Clustering(29) Variable = 17q gain mutation analysis
D29V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 21
  CLUS_2                4                 22
  CLUS_3               11                 30
  CLUS_4                3                 53
D29V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                8                 32
  CLUS_2                6                 51
  CLUS_3                7                 43
D29V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                5                 31
  CLUS_3                9                 28
D29V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 23
  CLUS_3                6                 28
  CLUS_4                6                 13
D29V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                5                 33
  CLUS_3               10                 41
D29V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                6                 42
  CLUS_2               10                 54
  CLUS_3                5                 28
D29V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               11                 45
  CLUS_2                5                 24
  CLUS_3                5                 54
D29V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                2                 16
  CLUS_3               14                 80

Clustering(30) Variable = 18p gain mutation analysis
D30V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 19
  CLUS_2                5                 21
  CLUS_3                6                 35
  CLUS_4                3                 53
D30V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                6                 34
  CLUS_2                4                 53
  CLUS_3                9                 41
D30V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                5                 31
  CLUS_3                5                 32
D30V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 24
  CLUS_3                4                 30
  CLUS_4                5                 14
D30V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 51
  CLUS_2                3                 35
  CLUS_3               11                 40
D30V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 45
  CLUS_2                9                 55
  CLUS_3                7                 26
D30V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                8                 21
  CLUS_3                5                 54
D30V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                4                 14
  CLUS_3               12                 82

Clustering(31) Variable = 18q gain mutation analysis
D31V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                 20
  CLUS_2                4                 22
  CLUS_3                1                 40
  CLUS_4                1                 55
D31V2, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                2                 55
  CLUS_3                4                 46
D31V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                2                 34
  CLUS_3                3                 34
D31V4, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 24
  CLUS_3                2                 32
  CLUS_4                1                 18
D31V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                1                 37
  CLUS_3                6                 45
D31V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 46
  CLUS_2                3                 61
  CLUS_3                5                 28
D31V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                2                 27
  CLUS_3                5                 54
D31V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                8                 86

Clustering(32) Variable = 19p gain mutation analysis
D32V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 22
  CLUS_2                2                 24
  CLUS_3                2                 39
  CLUS_4                1                 55
D32V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                0                 57
  CLUS_3                3                 47
D32V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                4                 32
  CLUS_3                2                 35
D32V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                4                 22
  CLUS_3                2                 32
  CLUS_4                0                 19
D32V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                0                 38
  CLUS_3                1                 50
D32V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                6                 42
  CLUS_2                0                 64
  CLUS_3                1                 32
D32V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                2                 27
  CLUS_3                3                 56
D32V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                5                 89

Clustering(33) Variable = 19q gain mutation analysis
D33V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                4                 20
  CLUS_2                3                 23
  CLUS_3                3                 38
  CLUS_4                1                 55
D33V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                7                 33
  CLUS_2                2                 55
  CLUS_3                2                 48
D33V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                4                 32
  CLUS_3                2                 35
D33V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                3                 23
  CLUS_3                3                 31
  CLUS_4                1                 18
D33V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                0                 38
  CLUS_3                1                 50
D33V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                7                 41
  CLUS_2                1                 63
  CLUS_3                2                 31
D33V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                3                 26
  CLUS_3                6                 53
D33V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                0                 18
  CLUS_3                7                 87

Clustering(34) Variable = 20p gain mutation analysis
D34V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                8                 16
  CLUS_2               15                 11
  CLUS_3               13                 28
  CLUS_4                7                 49
D34V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               20                 20
  CLUS_2               11                 46
  CLUS_3               12                 38
D34V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                7                 15
  CLUS_2               12                 24
  CLUS_3                8                 29
D34V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                6                 10
  CLUS_2                6                 20
  CLUS_3                9                 25
  CLUS_4                6                 13
D34V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               25                 31
  CLUS_2                6                 32
  CLUS_3               12                 39
D34V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               19                 29
  CLUS_2               16                 48
  CLUS_3                8                 25
D34V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               11                 45
  CLUS_2               13                 16
  CLUS_3               19                 40
D34V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               10                 22
  CLUS_2                7                 11
  CLUS_3               26                 68

Clustering(35) Variable = 20q gain mutation analysis
D35V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               10                 14
  CLUS_2               18                  8
  CLUS_3               16                 25
  CLUS_4                9                 47
D35V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               22                 18
  CLUS_2               13                 44
  CLUS_3               18                 32
D35V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                8                 14
  CLUS_2               16                 20
  CLUS_3               11                 26
D35V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                7                  9
  CLUS_2                7                 19
  CLUS_3               13                 21
  CLUS_4                8                 11
D35V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               28                 28
  CLUS_2                9                 29
  CLUS_3               16                 35
D35V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               22                 26
  CLUS_2               20                 44
  CLUS_3               11                 22
D35V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               18                 38
  CLUS_2               15                 14
  CLUS_3               19                 40
D35V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               10                 22
  CLUS_2                9                  9
  CLUS_3               33                 61

Clustering(36) Variable = 21q gain mutation analysis
D36V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                6                 18
  CLUS_2                3                 23
  CLUS_3                5                 36
  CLUS_4                3                 53
D36V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               11                 29
  CLUS_2                2                 55
  CLUS_3                4                 46
D36V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                4                 32
  CLUS_3                1                 36
D36V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                3                 23
  CLUS_3                3                 31
  CLUS_4                0                 19
D36V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                2                 36
  CLUS_3                6                 45
D36V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               10                 38
  CLUS_2                2                 62
  CLUS_3                5                 28
D36V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                3                 26
  CLUS_3                8                 51
D36V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                2                 16
  CLUS_3               11                 83

Clustering(37) Variable = 22q gain mutation analysis
D37V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                9                 15
  CLUS_2               15                 11
  CLUS_3                5                 36
  CLUS_4                8                 48
D37V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               13                 27
  CLUS_2               10                 47
  CLUS_3               14                 36
D37V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                7                 15
  CLUS_2                9                 27
  CLUS_3                6                 31
D37V4, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                5                 21
  CLUS_3                6                 28
  CLUS_4                6                 13
D37V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               17                 39
  CLUS_2                8                 30
  CLUS_3               11                 40
D37V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               15                 33
  CLUS_2               15                 49
  CLUS_3                6                 27
D37V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               12                 44
  CLUS_2               10                 19
  CLUS_3               14                 45
D37V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                8                 24
  CLUS_2                6                 12
  CLUS_3               22                 72

Clustering(38) Variable = 1p loss mutation analysis
D38V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               3                21
  CLUS_2               6                20
  CLUS_3               2                39
  CLUS_4               1                55
D38V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               8                32
  CLUS_2               1                56
  CLUS_3               3                47
D38V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               1                21
  CLUS_2               4                32
  CLUS_3               3                34
D38V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               1                25
  CLUS_3               5                29
  CLUS_4               1                18
D38V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               6                50
  CLUS_2               0                38
  CLUS_3               6                45
D38V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               6                42
  CLUS_2               1                63
  CLUS_3               5                28
D38V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                52
  CLUS_2               2                27
  CLUS_3               6                53
D38V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                30
  CLUS_2               1                17
  CLUS_3               9                85

Clustering(39) Variable = 1q loss mutation analysis
D39V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                24
  CLUS_2               4                22
  CLUS_3               0                41
  CLUS_4               0                56
D39V2, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                38
  CLUS_2               0                57
  CLUS_3               2                48
D39V3, multiclass
[1] "Remove cluster labels:" "1Q LOSS MUTATED"       
clus
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                1                94 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A3CE        TCGA-D9-A148        TCGA-D9-A149 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D9-A1JW        TCGA-D9-A1JX        TCGA-DA-A1HV        TCGA-DA-A1HW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1IB 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-EE-A17X        TCGA-EE-A181        TCGA-EE-A185 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29E        TCGA-EE-A29H 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29R 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A2A0        TCGA-EE-A2A2 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GC        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MR 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-ER-A19D        TCGA-ER-A19F 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19N        TCGA-ER-A19O 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FS-A1YW        TCGA-FS-A1Z4        TCGA-FS-A1ZD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A265        TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A26A        TCGA-GN-A26D 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
D39V4, multiclass
[1] "Remove cluster labels:" "1Q LOSS MUTATED"       
clus
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                1                94 
       TCGA-D3-A1Q1        TCGA-D3-A1Q5        TCGA-D3-A1Q6        TCGA-D3-A1Q7 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A1Q8        TCGA-D3-A1Q9        TCGA-D3-A2J6        TCGA-D3-A2J8 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D3-A2JD        TCGA-D3-A3CE        TCGA-D9-A148        TCGA-D9-A149 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-D9-A1JW        TCGA-D9-A1JX        TCGA-DA-A1HV        TCGA-DA-A1HW 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1HY        TCGA-DA-A1I2        TCGA-DA-A1I4        TCGA-DA-A1IB 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-DA-A1IC        TCGA-EE-A17X        TCGA-EE-A181        TCGA-EE-A185 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A20F        TCGA-EE-A29C        TCGA-EE-A29E        TCGA-EE-A29H 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29L        TCGA-EE-A29N        TCGA-EE-A29P        TCGA-EE-A29R 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A29S        TCGA-EE-A29T        TCGA-EE-A2A0        TCGA-EE-A2A2 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2A6        TCGA-EE-A2GC        TCGA-EE-A2GH        TCGA-EE-A2GI 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GK        TCGA-EE-A2GL        TCGA-EE-A2GP        TCGA-EE-A2GR 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2GS        TCGA-EE-A2GT        TCGA-EE-A2GU        TCGA-EE-A2M5 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2M6        TCGA-EE-A2M8        TCGA-EE-A2MC        TCGA-EE-A2MD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MI        TCGA-EE-A2MJ        TCGA-EE-A2MK        TCGA-EE-A2ML 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MM        TCGA-EE-A2MN        TCGA-EE-A2MP        TCGA-EE-A2MR 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A2MS        TCGA-EE-A2MT        TCGA-EE-A2MU        TCGA-EE-A3AA 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AB        TCGA-EE-A3AC        TCGA-EE-A3AD        TCGA-EE-A3AE 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-EE-A3AF        TCGA-EE-A3AG        TCGA-ER-A19D        TCGA-ER-A19F 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A19J        TCGA-ER-A19L        TCGA-ER-A19N        TCGA-ER-A19O 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-ER-A1A1        TCGA-FS-A1YW        TCGA-FS-A1Z4        TCGA-FS-A1ZD 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZG        TCGA-FS-A1ZH        TCGA-FS-A1ZJ        TCGA-FS-A1ZM 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-FS-A1ZP        TCGA-GN-A261        TCGA-GN-A262        TCGA-GN-A264 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A265        TCGA-GN-A266        TCGA-GN-A267        TCGA-GN-A268 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
       TCGA-GN-A26A        TCGA-GN-A26D 
"1Q LOSS WILD-TYPE" "1Q LOSS WILD-TYPE" 
D39V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                54
  CLUS_2               0                38
  CLUS_3               2                49
D39V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                46
  CLUS_2               1                63
  CLUS_3               1                32
D39V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                55
  CLUS_2               1                28
  CLUS_3               2                57
D39V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                18
  CLUS_3               2                92

Clustering(40) Variable = 2p loss mutation analysis
D40V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                21
  CLUS_2               3                23
  CLUS_3               6                35
  CLUS_4               2                54
D40V2, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               3                54
  CLUS_3               6                44
D40V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                21
  CLUS_2               4                32
  CLUS_3               5                32
D40V4, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               1                25
  CLUS_3               8                26
  CLUS_4               1                18
D40V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               5                51
  CLUS_2               2                36
  CLUS_3               7                44
D40V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               6                42
  CLUS_2               4                60
  CLUS_3               4                29
D40V7, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              10                46
  CLUS_2               2                27
  CLUS_3               2                57
D40V8, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               1                17
  CLUS_3              13                81

Clustering(41) Variable = 2q loss mutation analysis
D41V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                22
  CLUS_2               2                24
  CLUS_3               7                34
  CLUS_4               2                54
D41V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               2                55
  CLUS_3               6                44
D41V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                21
  CLUS_2               4                32
  CLUS_3               4                33
D41V4, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               2                24
  CLUS_3               6                28
  CLUS_4               1                18
D41V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               4                52
  CLUS_2               2                36
  CLUS_3               7                44
D41V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               5                43
  CLUS_2               4                60
  CLUS_3               4                29
D41V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              10                46
  CLUS_2               2                27
  CLUS_3               1                58
D41V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               1                17
  CLUS_3              12                82

Clustering(42) Variable = 3p loss mutation analysis
D42V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                24
  CLUS_2               5                21
  CLUS_3               4                37
  CLUS_4               1                55
D42V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               1                56
  CLUS_3               4                46
D42V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               3                33
  CLUS_3               4                33
D42V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               3                23
  CLUS_3               3                31
  CLUS_4               1                18
D42V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               9                47
  CLUS_2               0                38
  CLUS_3               1                50
D42V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               8                40
  CLUS_2               1                63
  CLUS_3               1                32
D42V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                54
  CLUS_2               4                25
  CLUS_3               4                55
D42V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                30
  CLUS_2               1                17
  CLUS_3               7                87

Clustering(43) Variable = 3q loss mutation analysis
D43V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                23
  CLUS_2               4                22
  CLUS_3               6                35
  CLUS_4               1                55
D43V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               1                56
  CLUS_3               6                44
D43V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               2                34
  CLUS_3               6                31
D43V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               1                25
  CLUS_3               6                28
  CLUS_4               1                18
D43V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               7                49
  CLUS_2               0                38
  CLUS_3               5                46
D43V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               6                42
  CLUS_2               3                61
  CLUS_3               3                30
D43V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               5                51
  CLUS_2               2                27
  CLUS_3               5                54
D43V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                18
  CLUS_3              11                83

Clustering(44) Variable = 4p loss mutation analysis
D44V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                22
  CLUS_2               8                18
  CLUS_3               1                40
  CLUS_4               4                52
D44V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               6                34
  CLUS_2               4                53
  CLUS_3               5                45
D44V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               3                19
  CLUS_2               4                32
  CLUS_3               3                34
D44V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               4                22
  CLUS_3               3                31
  CLUS_4               1                18
D44V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               7                49
  CLUS_2               0                38
  CLUS_3               8                43
D44V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               7                41
  CLUS_2               3                61
  CLUS_3               5                28
D44V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               8                48
  CLUS_2               1                28
  CLUS_3               6                53
D44V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               4                28
  CLUS_2               1                17
  CLUS_3              10                84

Clustering(45) Variable = 4q loss mutation analysis
D45V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               2                22
  CLUS_2               8                18
  CLUS_3               1                40
  CLUS_4               5                51
D45V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               5                52
  CLUS_3               6                44
D45V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                19
  CLUS_2               5                31
  CLUS_3               3                34
D45V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               5                21
  CLUS_3               2                32
  CLUS_4               2                17
D45V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               8                48
  CLUS_2               1                37
  CLUS_3               7                44
D45V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               8                40
  CLUS_2               4                60
  CLUS_3               4                29
D45V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               8                48
  CLUS_2               2                27
  CLUS_3               6                53
D45V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               4                28
  CLUS_2               2                16
  CLUS_3              10                84

Clustering(46) Variable = 5p loss mutation analysis
D46V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               5                19
  CLUS_2               0                26
  CLUS_3               4                37
  CLUS_4               9                47
D46V2, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                37
  CLUS_2               4                53
  CLUS_3              11                39
D46V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                19
  CLUS_2               4                32
  CLUS_3               8                29
D46V4, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               3                23
  CLUS_3               8                26
  CLUS_4               1                18
D46V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               6                50
  CLUS_2               2                36
  CLUS_3              10                41
D46V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               5                43
  CLUS_2               3                61
  CLUS_3              10                23
D46V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              11                45
  CLUS_2               2                27
  CLUS_3               5                54
D46V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                30
  CLUS_2               1                17
  CLUS_3              15                79

Clustering(47) Variable = 5q loss mutation analysis
D47V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               6                18
  CLUS_2               4                22
  CLUS_3               6                35
  CLUS_4              15                41
D47V2, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               4                36
  CLUS_2              10                47
  CLUS_3              17                33
D47V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                20
  CLUS_2               8                28
  CLUS_3              10                27
D47V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               7                19
  CLUS_3               8                26
  CLUS_4               3                16
D47V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              13                43
  CLUS_2               4                34
  CLUS_3              14                37
D47V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              11                37
  CLUS_2               9                55
  CLUS_3              11                22
D47V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              15                41
  CLUS_2               7                22
  CLUS_3               9                50
D47V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               5                27
  CLUS_2               4                14
  CLUS_3              22                72

Clustering(48) Variable = 6p loss mutation analysis
D48V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               0                24
  CLUS_2               3                23
  CLUS_3               6                35
  CLUS_4               2                54
D48V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               1                56
  CLUS_3               5                45
D48V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                19
  CLUS_2               0                36
  CLUS_3               3                34
D48V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               1                25
  CLUS_3               2                32
  CLUS_4               1                18
D48V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               5                51
  CLUS_2               1                37
  CLUS_3               5                46
D48V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               5                43
  CLUS_2               3                61
  CLUS_3               3                30
D48V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                52
  CLUS_2               3                26
  CLUS_3               4                55
D48V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                28
  CLUS_2               2                16
  CLUS_3               5                89

Clustering(49) Variable = 6q loss mutation analysis
D49V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              11                13
  CLUS_2              13                13
  CLUS_3              20                21
  CLUS_4               9                47
D49V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              19                21
  CLUS_2              11                46
  CLUS_3              23                27
D49V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               8                14
  CLUS_2              10                26
  CLUS_3              15                22
D49V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                10
  CLUS_2              10                16
  CLUS_3              12                22
  CLUS_4               5                14
D49V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              25                31
  CLUS_2               8                30
  CLUS_3              20                31
D49V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              19                29
  CLUS_2              19                45
  CLUS_3              15                18
D49V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              19                37
  CLUS_2              14                15
  CLUS_3              20                39
D49V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              10                22
  CLUS_2               9                 9
  CLUS_3              34                60

Clustering(50) Variable = 8p loss mutation analysis
D50V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               4                20
  CLUS_2               3                23
  CLUS_3               4                37
  CLUS_4               5                51
D50V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               6                34
  CLUS_2               4                53
  CLUS_3               6                44
D50V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                20
  CLUS_2               7                29
  CLUS_3               3                34
D50V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               4                22
  CLUS_3               5                29
  CLUS_4               1                18
D50V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               6                50
  CLUS_2               2                36
  CLUS_3               8                43
D50V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               6                42
  CLUS_2               7                57
  CLUS_3               3                30
D50V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              11                45
  CLUS_2               0                29
  CLUS_3               5                54
D50V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               0                18
  CLUS_3              16                78

Clustering(51) Variable = 9p loss mutation analysis
D51V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              16                 8
  CLUS_2              16                10
  CLUS_3              33                 8
  CLUS_4              17                39
D51V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              25                15
  CLUS_2              20                37
  CLUS_3              37                13
D51V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              12                10
  CLUS_2              17                19
  CLUS_3              23                14
D51V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               9                 7
  CLUS_2              14                12
  CLUS_3              22                12
  CLUS_4               7                12
D51V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              36                20
  CLUS_2              13                25
  CLUS_3              33                18
D51V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              31                17
  CLUS_2              28                36
  CLUS_3              23                10
D51V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              34                22
  CLUS_2              17                12
  CLUS_3              29                30
D51V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              14                18
  CLUS_2               9                 9
  CLUS_3              57                37

Clustering(52) Variable = 9q loss mutation analysis
D52V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              10                14
  CLUS_2              11                15
  CLUS_3              25                16
  CLUS_4              15                41
D52V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              15                25
  CLUS_2              14                43
  CLUS_3              32                18
D52V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               8                14
  CLUS_2              14                22
  CLUS_3              18                19
D52V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                11
  CLUS_2              13                13
  CLUS_3              16                18
  CLUS_4               6                13
D52V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              26                30
  CLUS_2              12                26
  CLUS_3              23                28
D52V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              21                27
  CLUS_2              23                41
  CLUS_3              17                16
D52V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              26                30
  CLUS_2              16                13
  CLUS_3              18                41
D52V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               9                23
  CLUS_2               8                10
  CLUS_3              43                51

Clustering(53) Variable = 10p loss mutation analysis
D53V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               16                  8
  CLUS_2               17                  9
  CLUS_3               21                 20
  CLUS_4               10                 46
D53V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               26                 14
  CLUS_2               15                 42
  CLUS_3               23                 27
D53V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               10                 12
  CLUS_2               16                 20
  CLUS_3               12                 25
D53V4, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                6                 10
  CLUS_2                9                 17
  CLUS_3               18                 16
  CLUS_4                5                 14
D53V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               35                 21
  CLUS_2                7                 31
  CLUS_3               21                 30
D53V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               30                 18
  CLUS_2               18                 46
  CLUS_3               15                 18
D53V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               28                 28
  CLUS_2               11                 18
  CLUS_3               25                 34
D53V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               12                 20
  CLUS_2                5                 13
  CLUS_3               47                 47

Clustering(54) Variable = 10q loss mutation analysis
D54V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               16                  8
  CLUS_2               20                  6
  CLUS_3               23                 18
  CLUS_4               12                 44
D54V2, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               25                 15
  CLUS_2               18                 39
  CLUS_3               28                 22
D54V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               10                 12
  CLUS_2               19                 17
  CLUS_3               15                 22
D54V4, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                 10
  CLUS_2               12                 14
  CLUS_3               18                 16
  CLUS_4                8                 11
D54V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               39                 17
  CLUS_2                8                 30
  CLUS_3               24                 27
D54V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               33                 15
  CLUS_2               23                 41
  CLUS_3               15                 18
D54V7, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               27                 29
  CLUS_2               17                 12
  CLUS_3               27                 32
D54V8, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               13                 19
  CLUS_2                9                  9
  CLUS_3               49                 45

Clustering(55) Variable = 11p loss mutation analysis
D55V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               13                 11
  CLUS_2               12                 14
  CLUS_3                5                 36
  CLUS_4                5                 51
D55V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               11                 29
  CLUS_2                5                 52
  CLUS_3               19                 31
D55V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                7                 15
  CLUS_2               10                 26
  CLUS_3                8                 29
D55V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                7                 19
  CLUS_3                9                 25
  CLUS_4                4                 15
D55V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               16                 40
  CLUS_2                3                 35
  CLUS_3               16                 35
D55V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               13                 35
  CLUS_2               14                 50
  CLUS_3                8                 25
D55V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               15                 41
  CLUS_2                8                 21
  CLUS_3               11                 48
D55V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                7                 25
  CLUS_2                3                 15
  CLUS_3               24                 70

Clustering(56) Variable = 11q loss mutation analysis
D56V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               14                 10
  CLUS_2               11                 15
  CLUS_3                9                 32
  CLUS_4                5                 51
D56V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               15                 25
  CLUS_2                7                 50
  CLUS_3               17                 33
D56V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                7                 15
  CLUS_2               12                 24
  CLUS_3                9                 28
D56V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                8                 18
  CLUS_3               10                 24
  CLUS_4                5                 14
D56V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               16                 40
  CLUS_2                4                 34
  CLUS_3               19                 32
D56V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               13                 35
  CLUS_2               16                 48
  CLUS_3               10                 23
D56V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               16                 40
  CLUS_2               10                 19
  CLUS_3               13                 46
D56V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                7                 25
  CLUS_2                4                 14
  CLUS_3               28                 66

Clustering(57) Variable = 12p loss mutation analysis
D57V1, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                 21
  CLUS_2                0                 26
  CLUS_3                4                 37
  CLUS_4                1                 55
D57V2, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                1                 56
  CLUS_3                5                 45
D57V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 22
  CLUS_2                3                 33
  CLUS_3                2                 35
D57V4, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                3                 23
  CLUS_3                2                 32
  CLUS_4                0                 19
D57V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                5                 51
  CLUS_2                2                 36
  CLUS_3                1                 50
D57V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                 45
  CLUS_2                4                 60
  CLUS_3                1                 32
D57V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                2                 27
  CLUS_3                4                 55
D57V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                1                 17
  CLUS_3                5                 89

Clustering(58) Variable = 12q loss mutation analysis
D58V1, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                7                 17
  CLUS_2                2                 24
  CLUS_3                5                 36
  CLUS_4                1                 55
D58V2, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                6                 34
  CLUS_2                1                 56
  CLUS_3                8                 42
D58V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                4                 32
  CLUS_3                3                 34
D58V4, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 23
  CLUS_3                3                 31
  CLUS_4                1                 18
D58V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                8                 48
  CLUS_2                2                 36
  CLUS_3                5                 46
D58V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                6                 42
  CLUS_2                6                 58
  CLUS_3                3                 30
D58V7, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                3                 26
  CLUS_3                6                 53
D58V8, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                2                 16
  CLUS_3               11                 83

Clustering(59) Variable = 13q loss mutation analysis
D59V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                 20
  CLUS_2                6                 20
  CLUS_3                9                 32
  CLUS_4                4                 52
D59V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                9                 48
  CLUS_3               10                 40
D59V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                6                 30
  CLUS_3                7                 30
D59V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                5                 21
  CLUS_3                6                 28
  CLUS_4                4                 15
D59V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                3                 35
  CLUS_3               11                 40
D59V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                7                 41
  CLUS_2               10                 54
  CLUS_3                6                 27
D59V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               13                 43
  CLUS_2                4                 25
  CLUS_3                6                 53
D59V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                1                 17
  CLUS_3               17                 77

Clustering(60) Variable = 14q loss mutation analysis
D60V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                 19
  CLUS_2               11                 15
  CLUS_3               16                 25
  CLUS_4                3                 53
D60V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               14                 26
  CLUS_2                9                 48
  CLUS_3               12                 38
D60V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                6                 16
  CLUS_2                8                 28
  CLUS_3                7                 30
D60V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                6                 10
  CLUS_2                3                 23
  CLUS_3                9                 25
  CLUS_4                3                 16
D60V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               20                 36
  CLUS_2                4                 34
  CLUS_3               11                 40
D60V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               16                 32
  CLUS_2               10                 54
  CLUS_3                9                 24
D60V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               15                 41
  CLUS_2                6                 23
  CLUS_3               13                 46
D60V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                6                 26
  CLUS_2                1                 17
  CLUS_3               27                 67

Clustering(61) Variable = 15q loss mutation analysis
D61V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                4                 20
  CLUS_2                1                 25
  CLUS_3                6                 35
  CLUS_4                1                 55
D61V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                1                 56
  CLUS_3                7                 43
D61V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                4                 32
  CLUS_3                3                 34
D61V4, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 24
  CLUS_3                4                 30
  CLUS_4                1                 18
D61V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                8                 48
  CLUS_2                1                 37
  CLUS_3                3                 48
D61V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                6                 42
  CLUS_2                4                 60
  CLUS_3                2                 31
D61V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                2                 27
  CLUS_3                6                 53
D61V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                1                 17
  CLUS_3                9                 85

Clustering(62) Variable = 16p loss mutation analysis
D62V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                3                 23
  CLUS_3                3                 38
  CLUS_4                2                 54
D62V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                1                 56
  CLUS_3                4                 46
D62V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 22
  CLUS_2                2                 34
  CLUS_3                4                 33
D62V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                1                 25
  CLUS_3                4                 30
  CLUS_4                1                 18
D62V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                0                 38
  CLUS_3                5                 46
D62V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 44
  CLUS_2                3                 61
  CLUS_3                2                 31
D62V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                7                 49
  CLUS_2                2                 27
  CLUS_3                0                 59
D62V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                0                 18
  CLUS_3                9                 85

Clustering(63) Variable = 16q loss mutation analysis
D63V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 21
  CLUS_2                5                 21
  CLUS_3                9                 32
  CLUS_4                3                 53
D63V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                7                 33
  CLUS_2                6                 51
  CLUS_3                7                 43
D63V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                3                 33
  CLUS_3                8                 29
D63V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 24
  CLUS_3                8                 26
  CLUS_4                1                 18
D63V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                1                 37
  CLUS_3               13                 38
D63V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                5                 43
  CLUS_2                9                 55
  CLUS_3                6                 27
D63V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               13                 43
  CLUS_2                4                 25
  CLUS_3                3                 56
D63V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                1                 17
  CLUS_3               19                 75

Clustering(64) Variable = 17p loss mutation analysis
D64V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                 14
  CLUS_2                5                 21
  CLUS_3                8                 33
  CLUS_4               10                 46
D64V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                8                 32
  CLUS_2                9                 48
  CLUS_3               16                 34
D64V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                8                 28
  CLUS_3               10                 27
D64V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                7                 19
  CLUS_3                9                 25
  CLUS_4                3                 16
D64V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                 46
  CLUS_2                6                 32
  CLUS_3               17                 34
D64V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                7                 41
  CLUS_2               18                 46
  CLUS_3                8                 25
D64V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               17                 39
  CLUS_2                4                 25
  CLUS_3               11                 48
D64V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                1                 17
  CLUS_3               26                 68

Clustering(65) Variable = 17q loss mutation analysis
D65V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                4                 22
  CLUS_3                2                 39
  CLUS_4                5                 51
D65V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                5                 52
  CLUS_3                4                 46
D65V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                4                 32
  CLUS_3                3                 34
D65V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                3                 23
  CLUS_3                3                 31
  CLUS_4                1                 18
D65V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                2                 36
  CLUS_3                6                 45
D65V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 45
  CLUS_2                4                 60
  CLUS_3                5                 28
D65V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                2                 27
  CLUS_3                3                 56
D65V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 18
  CLUS_3                9                 85

Clustering(66) Variable = 18p loss mutation analysis
D66V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 20
  CLUS_2                8                 18
  CLUS_3               10                 31
  CLUS_4                4                 52
D66V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               11                 29
  CLUS_2                4                 53
  CLUS_3               11                 39
D66V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                6                 30
  CLUS_3                5                 32
D66V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 24
  CLUS_3                7                 27
  CLUS_4                3                 16
D66V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               18                 38
  CLUS_2                4                 34
  CLUS_3                4                 47
D66V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               13                 35
  CLUS_2                7                 57
  CLUS_3                6                 27
D66V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               14                 42
  CLUS_2                4                 25
  CLUS_3                8                 51
D66V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                5                 27
  CLUS_2                3                 15
  CLUS_3               18                 76

Clustering(67) Variable = 18q loss mutation analysis
D67V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                3                 21
  CLUS_2                8                 18
  CLUS_3               10                 31
  CLUS_4                3                 53
D67V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               10                 30
  CLUS_2                4                 53
  CLUS_3               10                 40
D67V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                4                 32
  CLUS_3                6                 31
D67V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                0                 26
  CLUS_3                8                 26
  CLUS_4                3                 16
D67V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               14                 42
  CLUS_2                4                 34
  CLUS_3                6                 45
D67V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               11                 37
  CLUS_2                8                 56
  CLUS_3                5                 28
D67V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               13                 43
  CLUS_2                4                 25
  CLUS_3                7                 52
D67V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                6                 26
  CLUS_2                2                 16
  CLUS_3               16                 78

Clustering(68) Variable = 19p loss mutation analysis
D68V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 22
  CLUS_2                7                 19
  CLUS_3                2                 39
  CLUS_4                3                 53
D68V2, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                5                 52
  CLUS_3                8                 42
D68V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                2                 34
  CLUS_3                4                 33
D68V4, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 24
  CLUS_3                2                 32
  CLUS_4                3                 16
D68V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                3                 35
  CLUS_3                8                 43
D68V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                4                 44
  CLUS_2                8                 56
  CLUS_3                2                 31
D68V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                8                 48
  CLUS_2                4                 25
  CLUS_3                2                 57
D68V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                2                 16
  CLUS_3                9                 85

Clustering(69) Variable = 19q loss mutation analysis
D69V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 21
  CLUS_2                7                 19
  CLUS_3                3                 38
  CLUS_4                2                 54
D69V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                4                 53
  CLUS_3               10                 40
D69V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                4                 32
  CLUS_3                5                 32
D69V4, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                5                 21
  CLUS_3                3                 31
  CLUS_4                2                 17
D69V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                3                 35
  CLUS_3                8                 43
D69V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                4                 44
  CLUS_2                8                 56
  CLUS_3                3                 30
D69V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                7                 49
  CLUS_2                5                 24
  CLUS_3                3                 56
D69V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                2                 16
  CLUS_3               10                 84

Clustering(70) Variable = 20p loss mutation analysis
D70V1, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                 23
  CLUS_2                0                 26
  CLUS_3                3                 38
  CLUS_4                2                 54
D70V2, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                2                 55
  CLUS_3                2                 48
D70V3, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 2                 93 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2JD 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A3CE         TCGA-D9-A148         TCGA-D9-A149 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A1JW         TCGA-D9-A1JX         TCGA-DA-A1HW 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1HY         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I8         TCGA-DA-A1IB         TCGA-DA-A1IC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A17X         TCGA-EE-A181         TCGA-EE-A185 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A20F         TCGA-EE-A29C         TCGA-EE-A29H 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29T 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A2         TCGA-EE-A2A6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GH         TCGA-EE-A2GI 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2M8         TCGA-EE-A2MC         TCGA-EE-A2MD 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MI         TCGA-EE-A2MJ         TCGA-EE-A2MK 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2ML         TCGA-EE-A2MM         TCGA-EE-A2MN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MP         TCGA-EE-A2MR         TCGA-EE-A2MS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MT         TCGA-EE-A2MU         TCGA-EE-A3AA 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AB         TCGA-EE-A3AC         TCGA-EE-A3AD 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AE         TCGA-EE-A3AF         TCGA-EE-A3AG 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19N         TCGA-ER-A19O 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FS-A1YW         TCGA-FS-A1Z4 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A261         TCGA-GN-A262         TCGA-GN-A264 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A266         TCGA-GN-A267 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A268         TCGA-GN-A26A         TCGA-GN-A26D 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
D70V4, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 2                 93 
        TCGA-D3-A1Q1         TCGA-D3-A1Q5         TCGA-D3-A1Q6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A1Q7         TCGA-D3-A1Q8         TCGA-D3-A1Q9 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A2J6         TCGA-D3-A2J8         TCGA-D3-A2JD 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D3-A3CE         TCGA-D9-A148         TCGA-D9-A149 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-D9-A1JW         TCGA-D9-A1JX         TCGA-DA-A1HW 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1HY         TCGA-DA-A1I2         TCGA-DA-A1I4 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DA-A1I8         TCGA-DA-A1IB         TCGA-DA-A1IC 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A17X         TCGA-EE-A181         TCGA-EE-A185 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A20F         TCGA-EE-A29C         TCGA-EE-A29H 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29L         TCGA-EE-A29N         TCGA-EE-A29P 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A29R         TCGA-EE-A29S         TCGA-EE-A29T 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2A0         TCGA-EE-A2A2         TCGA-EE-A2A6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GC         TCGA-EE-A2GH         TCGA-EE-A2GI 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GK         TCGA-EE-A2GL         TCGA-EE-A2GP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GR         TCGA-EE-A2GS         TCGA-EE-A2GT 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2GU         TCGA-EE-A2M5         TCGA-EE-A2M6 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2M8         TCGA-EE-A2MC         TCGA-EE-A2MD 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MI         TCGA-EE-A2MJ         TCGA-EE-A2MK 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2ML         TCGA-EE-A2MM         TCGA-EE-A2MN 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MP         TCGA-EE-A2MR         TCGA-EE-A2MS 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A2MT         TCGA-EE-A2MU         TCGA-EE-A3AA 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AB         TCGA-EE-A3AC         TCGA-EE-A3AD 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-EE-A3AE         TCGA-EE-A3AF         TCGA-EE-A3AG 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19D         TCGA-ER-A19F         TCGA-ER-A19J 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A19L         TCGA-ER-A19N         TCGA-ER-A19O 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-ER-A1A1         TCGA-FS-A1YW         TCGA-FS-A1Z4 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZD         TCGA-FS-A1ZG         TCGA-FS-A1ZH 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-FS-A1ZJ         TCGA-FS-A1ZM         TCGA-FS-A1ZP 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A261         TCGA-GN-A262         TCGA-GN-A264 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A265         TCGA-GN-A266         TCGA-GN-A267 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-GN-A268         TCGA-GN-A26A         TCGA-GN-A26D 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
D70V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                2                 36
  CLUS_3                1                 50
D70V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                 47
  CLUS_2                3                 61
  CLUS_3                2                 31
D70V7, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                0                 29
  CLUS_3                2                 57
D70V8, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                0                 18
  CLUS_3                6                 88

Clustering(71) Variable = 21q loss mutation analysis
D71V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                 22
  CLUS_2                5                 21
  CLUS_3                6                 35
  CLUS_4                5                 51
D71V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                4                 53
  CLUS_3               10                 40
D71V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                6                 30
  CLUS_3                7                 30
D71V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                4                 22
  CLUS_3                7                 27
  CLUS_4                2                 17
D71V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                8                 48
  CLUS_2                4                 34
  CLUS_3                6                 45
D71V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                8                 40
  CLUS_2                8                 56
  CLUS_3                2                 31
D71V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               11                 45
  CLUS_2                4                 25
  CLUS_3                3                 56
D71V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                3                 15
  CLUS_3               12                 82

Clustering(72) Variable = 22q loss mutation analysis
D72V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 22
  CLUS_2                1                 25
  CLUS_3                5                 36
  CLUS_4                4                 52
D72V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                5                 35
  CLUS_2                4                 53
  CLUS_3                3                 47
D72V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 19
  CLUS_2                3                 33
  CLUS_3                4                 33
D72V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                3                 23
  CLUS_3                4                 30
  CLUS_4                1                 18
D72V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                1                 37
  CLUS_3                5                 46
D72V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 42
  CLUS_2                2                 62
  CLUS_3                4                 29
D72V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                7                 49
  CLUS_2                1                 28
  CLUS_3                4                 55
D72V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                1                 17
  CLUS_3               10                 84

Clustering(73) Variable = Xq loss mutation analysis
D73V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               1                23
  CLUS_2               0                26
  CLUS_3               2                39
  CLUS_4               1                55
D73V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               1                39
  CLUS_2               0                57
  CLUS_3               3                47
D73V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               1                35
  CLUS_3               2                35
D73V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                26
  CLUS_3               3                31
  CLUS_4               0                19
D73V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                54
  CLUS_2               0                38
  CLUS_3               2                49
D73V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                46
  CLUS_2               1                63
  CLUS_3               1                32
D73V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                54
  CLUS_2               1                28
  CLUS_3               1                58
D73V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               0                18
  CLUS_3               4                90
                     V1                      V2                      V3 
              "CN_CNMF"      "METHLYATION_CNMF"             "RPPA_CNMF" 
                     V4                      V5                      V6 
   "RPPA_CHIERARCHICAL"          "MRNASEQ_CNMF" "MRNASEQ_CHIERARCHICAL" 
                     V7                      V8 
          "MIRSEQ_CNMF"  "MIRSEQ_CHIERARCHICAL" 
> q(save="no")
