
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/334125/broad_values_by_arm.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/CESC-TP/2662335/1.GDAC_mergedClustering.Finished/CESC-TP.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=CESC-TP", "-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=CESC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=122, in cluster file=114, common to both=114
[1] "Reduce the number of clustering variables from 80 to 73."
[1]  73 114
[1] "1p gain mutation analysis"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               30                84 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               30                84 
[1] "1q gain mutation analysis"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               41                73 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               41                73 
[1] "2p gain mutation analysis"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               16                98 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               16                98 
[1] "2q gain mutation analysis"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
                4               110 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
                4               110 
[1] "3p gain mutation analysis"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               20                94 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               20                94 
[1] "3q gain mutation analysis"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               57                57 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               57                57 
[1] "4q gain mutation analysis"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                3               111 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                3               111 
[1] "5p gain mutation analysis"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               37                77 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               37                77 
[1] "5q gain mutation analysis"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               13               101 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               13               101 
[1] "6p gain mutation analysis"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               14               100 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               14               100 
[1] "6q gain mutation analysis"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                8               106 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                8               106 
[1] "7p gain mutation analysis"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
                6               108 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
                6               108 
[1] "7q gain mutation analysis"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               10               104 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               10               104 
[1] "8p gain mutation analysis"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               11               103 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               11               103 
[1] "8q gain mutation analysis"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               21                93 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               21                93 
[1] "9p gain mutation analysis"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               10               104 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               10               104 
[1] "9q gain mutation analysis"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               10               104 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               10               104 
[1] "10p gain mutation analysis"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 7                107 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 7                107 
[1] "10q gain mutation analysis"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 4                110 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 4                110 
[1] "12p gain mutation analysis"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                14                100 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                14                100 
[1] "12q gain mutation analysis"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                10                104 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                10                104 
[1] "13q gain mutation analysis"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 4                110 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 4                110 
[1] "14q gain mutation analysis"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 9                105 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 9                105 
[1] "15q gain mutation analysis"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                13                101 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                13                101 
[1] "16p gain mutation analysis"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                13                101 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                13                101 
[1] "16q gain mutation analysis"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 9                105 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 9                105 
[1] "17p gain mutation analysis"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 4                110 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 4                110 
[1] "17q gain mutation analysis"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                11                103 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                11                103 
[1] "18p gain mutation analysis"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                11                103 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                11                103 
[1] "18q gain mutation analysis"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 6                108 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 6                108 
[1] "19p gain mutation analysis"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 8                106 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 8                106 
[1] "19q gain mutation analysis"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                20                 94 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                20                 94 
[1] "20p gain mutation analysis"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                30                 84 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                30                 84 
[1] "20q gain mutation analysis"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                35                 79 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                35                 79 
[1] "21q gain mutation analysis"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                14                100 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                14                100 
[1] "22q gain mutation analysis"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 7                107 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 7                107 
[1] "Xq gain mutation analysis"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                6               108 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                6               108 
[1] "1q loss mutation analysis"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                3               111 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                3               111 
[1] "2p loss mutation analysis"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                3               111 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                3               111 
[1] "2q loss mutation analysis"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                5               109 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                5               109 
[1] "3p loss mutation analysis"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               26                88 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               26                88 
[1] "4p loss mutation analysis"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               37                77 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               37                77 
[1] "4q loss mutation analysis"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               23                91 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               23                91 
[1] "5p loss mutation analysis"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                3               111 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                3               111 
[1] "5q loss mutation analysis"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               17                97 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               17                97 
[1] "6p loss mutation analysis"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               13               101 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               13               101 
[1] "6q loss mutation analysis"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               23                91 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               23                91 
[1] "7p loss mutation analysis"
[1] 3
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
                6               108 
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
                6               108 
[1] "7q loss mutation analysis"
[1] 3
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
               13               101 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
               13               101 
[1] "8p loss mutation analysis"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               27                87 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               27                87 
[1] "8q loss mutation analysis"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                7               107 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                7               107 
[1] "9p loss mutation analysis"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                9               105 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                9               105 
[1] "9q loss mutation analysis"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               10               104 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               10               104 
[1] "10p loss mutation analysis"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                20                 94 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                20                 94 
[1] "10q loss mutation analysis"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                22                 92 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                22                 92 
[1] "11p loss mutation analysis"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                23                 91 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                23                 91 
[1] "11q loss mutation analysis"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                25                 89 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                25                 89 
[1] "12p loss mutation analysis"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                15                 99 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                15                 99 
[1] "12q loss mutation analysis"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 4                110 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 4                110 
[1] "13q loss mutation analysis"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                21                 93 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                21                 93 
[1] "14q loss mutation analysis"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                 7                107 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                 7                107 
[1] "15q loss mutation analysis"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 8                106 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 8                106 
[1] "16p loss mutation analysis"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 7                107 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 7                107 
[1] "16q loss mutation analysis"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                13                101 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                13                101 
[1] "17p loss mutation analysis"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                26                 88 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                26                 88 
[1] "17q loss mutation analysis"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 5                109 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 5                109 
[1] "18p loss mutation analysis"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                16                 98 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                16                 98 
[1] "18q loss mutation analysis"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                22                 92 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                22                 92 
[1] "19p loss mutation analysis"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                11                103 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                11                103 
[1] "19q loss mutation analysis"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 6                108 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 6                108 
[1] "20p loss mutation analysis"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 5                109 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 5                109 
[1] "21q loss mutation analysis"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                13                101 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                13                101 
[1] "22q loss mutation analysis"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                12                102 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                12                102 
[1] "data2feature, selection=ALL"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "MRNASEQ_CNMF"         
[4] "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 

Input Data has 6 rows and 114 columns.

Variable 1:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "MRNASEQ_CNMF"         
[4] "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 114 columns, 0 survival variables, and 6 non-survival variables.
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=5, 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              10                25
  CLUS_2               6                19
  CLUS_3              14                40
D1V2, multiclass
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              15                26
  CLUS_2               5                20
  CLUS_3               7                20
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                17
  CLUS_2               5                19
  CLUS_3              19                30
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              11                30
  CLUS_2               8                29
  CLUS_3              11                25
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               7                23
  CLUS_2              16                36
  CLUS_3               7                25

Clustering(2) Variable = 1q gain mutation analysis
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              17                18
  CLUS_2               7                18
  CLUS_3              17                37
D2V2, multiclass
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              18                23
  CLUS_2               7                18
  CLUS_3              12                15
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2              10                14
  CLUS_3              23                26
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              11                30
  CLUS_2              13                24
  CLUS_3              17                19
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              13                17
  CLUS_2              17                35
  CLUS_3              11                21

Clustering(3) Variable = 2p gain mutation analysis
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               8                27
  CLUS_2               4                21
  CLUS_3               4                50
D3V2, multiclass
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               2                39
  CLUS_2               5                20
  CLUS_3               7                20
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               3                17
  CLUS_2               6                18
  CLUS_3               5                44
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                37
  CLUS_2               3                34
  CLUS_3               9                27
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               7                23
  CLUS_2               3                49
  CLUS_3               6                26

Clustering(4) Variable = 2q gain mutation analysis
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               2                33
  CLUS_2               2                23
  CLUS_3               0                54
D4V2, multiclass
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               0                41
  CLUS_2               2                23
  CLUS_3               2                25
D4V4, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               1                19
  CLUS_2               2                22
  CLUS_3               1                48
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                36
  CLUS_3               1                35
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               1                29
  CLUS_2               2                50
  CLUS_3               1                31

Clustering(5) Variable = 3p gain mutation analysis
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                30
  CLUS_2               7                18
  CLUS_3               8                46
D5V2, multiclass
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               8                33
  CLUS_2               3                22
  CLUS_3               2                25
D5V4, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                19
  CLUS_2               3                21
  CLUS_3               9                40
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               6                35
  CLUS_2               8                29
  CLUS_3               6                30
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                26
  CLUS_2              11                41
  CLUS_3               5                27

Clustering(6) Variable = 3q gain mutation analysis
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              25                10
  CLUS_2              11                14
  CLUS_3              21                33
D6V2, multiclass
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              28                13
  CLUS_2               6                19
  CLUS_3              13                14
D6V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                17
  CLUS_2              13                11
  CLUS_3              31                18
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              19                22
  CLUS_2              21                16
  CLUS_3              17                19
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              12                18
  CLUS_2              33                19
  CLUS_3              12                20

Clustering(7) Variable = 4q gain mutation analysis
D7V1, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                35
  CLUS_2               0                25
  CLUS_3               3                51
D7V2, multiclass
D7V3, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                25
  CLUS_3               2                25
D7V4, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                20
  CLUS_2               2                22
  CLUS_3               1                48
D7V5, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                41
  CLUS_2               1                36
  CLUS_3               2                34
D7V6, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               2                28
  CLUS_2               1                51
  CLUS_3               0                32

Clustering(8) Variable = 5p gain mutation analysis
D8V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              12                23
  CLUS_2              14                11
  CLUS_3              11                43
D8V2, multiclass
D8V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              16                25
  CLUS_2              10                15
  CLUS_3               8                19
D8V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               8                12
  CLUS_2               8                16
  CLUS_3              18                31
D8V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              11                30
  CLUS_2               9                28
  CLUS_3              17                19
D8V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              12                18
  CLUS_2              13                39
  CLUS_3              12                20

Clustering(9) Variable = 5q gain mutation analysis
D9V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               4                31
  CLUS_2               3                22
  CLUS_3               6                48
D9V2, multiclass
D9V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               6                35
  CLUS_2               3                22
  CLUS_3               3                24
D9V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                18
  CLUS_2               2                22
  CLUS_3               8                41
D9V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                36
  CLUS_2               2                35
  CLUS_3               6                30
D9V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               4                26
  CLUS_2               4                48
  CLUS_3               5                27

Clustering(10) Variable = 6p gain mutation analysis
D10V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                30
  CLUS_2               5                20
  CLUS_3               4                50
D10V2, multiclass
D10V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                40
  CLUS_2               6                19
  CLUS_3               7                20
D10V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                17
  CLUS_2               7                17
  CLUS_3               4                45
D10V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               2                39
  CLUS_2               3                34
  CLUS_3               9                27
D10V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               7                23
  CLUS_2               3                49
  CLUS_3               4                28

Clustering(11) Variable = 6q gain mutation analysis
D11V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3                32
  CLUS_2               2                23
  CLUS_3               3                51
D11V2, multiclass
D11V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                40
  CLUS_2               3                22
  CLUS_3               4                23
D11V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                20
  CLUS_2               5                19
  CLUS_3               3                46
D11V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                40
  CLUS_2               3                34
  CLUS_3               4                32
D11V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               5                25
  CLUS_2               2                50
  CLUS_3               1                31

Clustering(12) Variable = 7p gain mutation analysis
D12V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               3                32
  CLUS_2               1                24
  CLUS_3               2                52
D12V2, multiclass
D12V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               5                36
  CLUS_2               1                24
  CLUS_3               0                27
D12V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               0                20
  CLUS_2               0                24
  CLUS_3               6                43
D12V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               4                37
  CLUS_2               1                36
  CLUS_3               1                35
D12V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               0                30
  CLUS_2               3                49
  CLUS_3               3                29

Clustering(13) Variable = 7q gain mutation analysis
D13V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               5                30
  CLUS_2               3                22
  CLUS_3               2                52
D13V2, multiclass
D13V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               7                34
  CLUS_2               2                23
  CLUS_3               1                26
D13V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               1                19
  CLUS_2               1                23
  CLUS_3               8                41
D13V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               4                37
  CLUS_2               2                35
  CLUS_3               4                32
D13V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                27
  CLUS_2               4                48
  CLUS_3               3                29

Clustering(14) Variable = 8p gain mutation analysis
D14V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                31
  CLUS_2               1                24
  CLUS_3               6                48
D14V2, multiclass
D14V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               8                33
  CLUS_2               2                23
  CLUS_3               1                26
D14V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               0                20
  CLUS_2               1                23
  CLUS_3              10                39
D14V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                38
  CLUS_2               5                32
  CLUS_3               3                33
D14V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               2                28
  CLUS_2               6                46
  CLUS_3               3                29

Clustering(15) Variable = 8q gain mutation analysis
D15V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               7                28
  CLUS_2               7                18
  CLUS_3               7                47
D15V2, multiclass
D15V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              12                29
  CLUS_2               7                18
  CLUS_3               2                25
D15V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2               2                22
  CLUS_3              15                34
D15V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              10                31
  CLUS_2               7                30
  CLUS_3               4                32
D15V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               3                27
  CLUS_2              10                42
  CLUS_3               8                24

Clustering(16) Variable = 9p gain mutation analysis
D16V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                32
  CLUS_2               3                22
  CLUS_3               4                50
D16V2, multiclass
D16V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                38
  CLUS_2               3                22
  CLUS_3               3                24
D16V4, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2               2                22
  CLUS_3               3                46
D16V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                38
  CLUS_2               3                34
  CLUS_3               4                32
D16V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                26
  CLUS_2               6                46
  CLUS_3               0                32

Clustering(17) Variable = 9q gain mutation analysis
D17V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                33
  CLUS_2               4                21
  CLUS_3               4                50
D17V2, multiclass
D17V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                38
  CLUS_2               4                21
  CLUS_3               1                26
D17V4, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2               0                24
  CLUS_3               4                45
D17V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               4                37
  CLUS_2               4                33
  CLUS_3               2                34
D17V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                28
  CLUS_2               7                45
  CLUS_3               1                31

Clustering(18) Variable = 10p gain mutation analysis
D18V1, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 33
  CLUS_2                1                 24
  CLUS_3                4                 50
D18V2, multiclass
D18V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                1                 24
  CLUS_3                1                 26
D18V4, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                2                 22
  CLUS_3                4                 45
D18V5, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                4                 33
  CLUS_3                2                 34
D18V6, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 28
  CLUS_2                3                 49
  CLUS_3                2                 30

Clustering(19) Variable = 10q gain mutation analysis
D19V1, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 34
  CLUS_2                0                 25
  CLUS_3                3                 51
D19V2, multiclass
D19V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 24
  CLUS_3                1                 26
D19V4, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                1                 23
  CLUS_3                2                 47
D19V5, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                2                 35
  CLUS_3                2                 34
D19V6, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 28
  CLUS_2                1                 51
  CLUS_3                1                 31

Clustering(20) Variable = 12p gain mutation analysis
D20V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                7                 28
  CLUS_2                2                 23
  CLUS_3                5                 49
D20V2, multiclass
D20V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                3                 22
  CLUS_3                6                 21
D20V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                6                 18
  CLUS_3                4                 45
D20V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                6                 31
  CLUS_3                6                 30
D20V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                6                 24
  CLUS_2                5                 47
  CLUS_3                3                 29

Clustering(21) Variable = 12q gain mutation analysis
D21V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                 30
  CLUS_2                2                 23
  CLUS_3                3                 51
D21V2, multiclass
D21V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                2                 23
  CLUS_3                3                 24
D21V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                3                 21
  CLUS_3                3                 46
D21V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                4                 33
  CLUS_3                4                 32
D21V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                5                 47
  CLUS_3                2                 30

Clustering(22) Variable = 13q gain mutation analysis
D22V1, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                 35
  CLUS_2                2                 23
  CLUS_3                2                 52
D22V2, multiclass
D22V3, multiclass
[1] "Remove cluster labels:" "13Q GAIN MUTATED"      
clus
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 2                 91 
        TCGA-BI-A0VR         TCGA-BI-A0VS         TCGA-BI-A20A 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A0TN         TCGA-C5-A1BE         TCGA-C5-A1BF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1BI         TCGA-C5-A1BJ         TCGA-C5-A1BK 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1BL         TCGA-C5-A1BM         TCGA-C5-A1BN 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1BQ         TCGA-C5-A1M5         TCGA-C5-A1M6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1M7         TCGA-C5-A1M8         TCGA-C5-A1M9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1ME         TCGA-C5-A1MF         TCGA-C5-A1MH 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1MI         TCGA-C5-A1MK         TCGA-C5-A1ML 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1MN         TCGA-C5-A1MP         TCGA-C5-A2LT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A2LV         TCGA-C5-A2LX         TCGA-C5-A2LY 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A2LZ         TCGA-C5-A2M1         TCGA-C5-A2M2 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A3HD         TCGA-C5-A3HF         TCGA-C5-A3HL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DG-A2KL         TCGA-DG-A2KM         TCGA-DR-A0ZL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DR-A0ZM         TCGA-DS-A0VK         TCGA-DS-A0VL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DS-A0VM         TCGA-DS-A0VN         TCGA-DS-A3LQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EA-A1QT         TCGA-EA-A3HQ         TCGA-EA-A3HR 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EA-A3HS         TCGA-EA-A3HT         TCGA-EA-A3QE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2GZ         TCGA-EK-A2H0         TCGA-EK-A2H1 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2IP         TCGA-EK-A2PI         TCGA-EK-A2PK 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2PL         TCGA-EK-A2PM         TCGA-EK-A2R7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2R8         TCGA-EK-A2RA         TCGA-EK-A2RB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2RC         TCGA-EK-A2RE         TCGA-EK-A2RJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2RK         TCGA-EK-A2RL         TCGA-EK-A2RM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2RN         TCGA-EK-A2RO         TCGA-EK-A3GJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A3GK         TCGA-EK-A3GM         TCGA-EK-A3GN 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EX-A1H5         TCGA-FU-A23K         TCGA-FU-A23L 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FU-A2QG         TCGA-FU-A3EO         TCGA-FU-A3HY 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FU-A3HZ         TCGA-FU-A3NI         TCGA-HG-A2PA 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-HM-A3JJ         TCGA-IR-A3L7         TCGA-IR-A3LC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-IR-A3LH         TCGA-IR-A3LK         TCGA-IR-A3LL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-JX-A3Q8 
"13Q GAIN WILD-TYPE" 
D22V4, multiclass
[1] "Remove cluster labels:" "13Q GAIN MUTATED"      
clus
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 2                 91 
        TCGA-BI-A0VR         TCGA-BI-A0VS         TCGA-BI-A20A 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A0TN         TCGA-C5-A1BE         TCGA-C5-A1BF 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1BI         TCGA-C5-A1BJ         TCGA-C5-A1BK 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1BL         TCGA-C5-A1BM         TCGA-C5-A1BN 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1BQ         TCGA-C5-A1M5         TCGA-C5-A1M6 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1M7         TCGA-C5-A1M8         TCGA-C5-A1M9 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1ME         TCGA-C5-A1MF         TCGA-C5-A1MH 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1MI         TCGA-C5-A1MK         TCGA-C5-A1ML 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A1MN         TCGA-C5-A1MP         TCGA-C5-A2LT 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A2LV         TCGA-C5-A2LX         TCGA-C5-A2LY 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A2LZ         TCGA-C5-A2M1         TCGA-C5-A2M2 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-C5-A3HD         TCGA-C5-A3HF         TCGA-C5-A3HL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DG-A2KL         TCGA-DG-A2KM         TCGA-DR-A0ZL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DR-A0ZM         TCGA-DS-A0VK         TCGA-DS-A0VL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-DS-A0VM         TCGA-DS-A0VN         TCGA-DS-A3LQ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EA-A1QT         TCGA-EA-A3HQ         TCGA-EA-A3HR 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EA-A3HS         TCGA-EA-A3HT         TCGA-EA-A3QE 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2GZ         TCGA-EK-A2H0         TCGA-EK-A2H1 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2IP         TCGA-EK-A2PI         TCGA-EK-A2PK 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2PL         TCGA-EK-A2PM         TCGA-EK-A2R7 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2R8         TCGA-EK-A2RA         TCGA-EK-A2RB 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2RC         TCGA-EK-A2RE         TCGA-EK-A2RJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2RK         TCGA-EK-A2RL         TCGA-EK-A2RM 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A2RN         TCGA-EK-A2RO         TCGA-EK-A3GJ 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EK-A3GK         TCGA-EK-A3GM         TCGA-EK-A3GN 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-EX-A1H5         TCGA-FU-A23K         TCGA-FU-A23L 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FU-A2QG         TCGA-FU-A3EO         TCGA-FU-A3HY 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-FU-A3HZ         TCGA-FU-A3NI         TCGA-HG-A2PA 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-HM-A3JJ         TCGA-IR-A3L7         TCGA-IR-A3LC 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-IR-A3LH         TCGA-IR-A3LK         TCGA-IR-A3LL 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-JX-A3Q8 
"13Q GAIN WILD-TYPE" 
D22V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 37
  CLUS_3                2                 34
D22V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 28
  CLUS_2                1                 51
  CLUS_3                1                 31

Clustering(23) Variable = 14q gain mutation analysis
D23V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 33
  CLUS_2                3                 22
  CLUS_3                4                 50
D23V2, multiclass
D23V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                4                 21
  CLUS_3                3                 24
D23V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                3                 21
  CLUS_3                2                 47
D23V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                1                 36
  CLUS_3                3                 33
D23V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                3                 49
  CLUS_3                3                 29

Clustering(24) Variable = 15q gain mutation analysis
D24V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                7                 28
  CLUS_2                2                 23
  CLUS_3                4                 50
D24V2, multiclass
D24V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                1                 24
  CLUS_3                4                 23
D24V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                3                 21
  CLUS_3                6                 43
D24V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                5                 32
  CLUS_3                4                 32
D24V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                 26
  CLUS_2                6                 46
  CLUS_3                3                 29

Clustering(25) Variable = 16p gain mutation analysis
D25V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                7                 28
  CLUS_2                2                 23
  CLUS_3                4                 50
D25V2, multiclass
D25V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                1                 24
  CLUS_3                2                 25
D25V4, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                2                 22
  CLUS_3                5                 44
D25V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                3                 34
  CLUS_3                7                 29
D25V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                6                 24
  CLUS_2                4                 48
  CLUS_3                3                 29

Clustering(26) Variable = 16q gain mutation analysis
D26V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                4                 31
  CLUS_2                0                 25
  CLUS_3                5                 49
D26V2, multiclass
D26V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                1                 24
  CLUS_3                2                 25
D26V4, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                2                 22
  CLUS_3                3                 46
D26V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                1                 36
  CLUS_3                5                 31
D26V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                2                 50
  CLUS_3                4                 28

Clustering(27) Variable = 17p gain mutation analysis
D27V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 33
  CLUS_2                1                 24
  CLUS_3                1                 53
D27V2, multiclass
D27V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                1                 24
  CLUS_3                1                 26
D27V4, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                1                 23
  CLUS_3                2                 47
D27V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                0                 37
  CLUS_3                3                 33
D27V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                0                 52
  CLUS_3                1                 31

Clustering(28) Variable = 17q gain mutation analysis
D28V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                4                 31
  CLUS_2                3                 22
  CLUS_3                4                 50
D28V2, multiclass
D28V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 24
  CLUS_3                5                 22
D28V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                5                 19
  CLUS_3                3                 46
D28V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                4                 33
  CLUS_3                5                 31
D28V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                6                 24
  CLUS_2                4                 48
  CLUS_3                1                 31

Clustering(29) Variable = 18p gain mutation analysis
D29V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                4                 31
  CLUS_2                3                 22
  CLUS_3                4                 50
D29V2, multiclass
D29V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                2                 23
  CLUS_3                1                 26
D29V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                1                 23
  CLUS_3                6                 43
D29V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                5                 32
  CLUS_3                1                 35
D29V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 29
  CLUS_2                8                 44
  CLUS_3                2                 30

Clustering(30) Variable = 18q gain mutation analysis
D30V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 33
  CLUS_2                1                 24
  CLUS_3                3                 51
D30V2, multiclass
D30V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 24
  CLUS_3                0                 27
D30V4, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                0                 24
  CLUS_3                2                 47
D30V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                4                 33
  CLUS_3                1                 35
D30V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 29
  CLUS_2                5                 47
  CLUS_3                0                 32

Clustering(31) Variable = 19p gain mutation analysis
D31V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                4                 31
  CLUS_2                2                 23
  CLUS_3                2                 52
D31V2, multiclass
D31V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                2                 23
  CLUS_3                3                 24
D31V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                3                 21
  CLUS_3                3                 46
D31V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                2                 35
  CLUS_3                5                 31
D31V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 28
  CLUS_2                3                 49
  CLUS_3                3                 29

Clustering(32) Variable = 19q gain mutation analysis
D32V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                7                 28
  CLUS_2                8                 17
  CLUS_3                5                 49
D32V2, multiclass
D32V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                6                 35
  CLUS_2                6                 19
  CLUS_3                7                 20
D32V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                6                 14
  CLUS_2                6                 18
  CLUS_3                7                 42
D32V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                6                 35
  CLUS_2                2                 35
  CLUS_3               12                 24
D32V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                8                 22
  CLUS_2                5                 47
  CLUS_3                7                 25

Clustering(33) Variable = 20p gain mutation analysis
D33V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               11                 24
  CLUS_2               12                 13
  CLUS_3                7                 47
D33V2, multiclass
D33V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               11                 30
  CLUS_2                6                 19
  CLUS_3                7                 20
D33V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                8                 16
  CLUS_3               12                 37
D33V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                8                 33
  CLUS_2               12                 25
  CLUS_3               10                 26
D33V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               10                 20
  CLUS_2               13                 39
  CLUS_3                7                 25

Clustering(34) Variable = 20q gain mutation analysis
D34V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               13                 22
  CLUS_2               11                 14
  CLUS_3               11                 43
D34V2, multiclass
D34V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               12                 29
  CLUS_2                7                 18
  CLUS_3                9                 18
D34V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                 16
  CLUS_2               11                 13
  CLUS_3               13                 36
D34V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               10                 31
  CLUS_2               13                 24
  CLUS_3               12                 24
D34V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               12                 18
  CLUS_2               14                 38
  CLUS_3                9                 23

Clustering(35) Variable = 21q gain mutation analysis
D35V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                5                 30
  CLUS_2                2                 23
  CLUS_3                7                 47
D35V2, multiclass
D35V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                0                 25
  CLUS_3                4                 23
D35V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                4                 20
  CLUS_3                7                 42
D35V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                6                 31
  CLUS_3                6                 30
D35V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                4                 26
  CLUS_2                8                 44
  CLUS_3                2                 30

Clustering(36) Variable = 22q gain mutation analysis
D36V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                5                 30
  CLUS_2                1                 24
  CLUS_3                1                 53
D36V2, multiclass
D36V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                2                 23
  CLUS_3                0                 27
D36V4, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                0                 24
  CLUS_3                6                 43
D36V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                5                 32
  CLUS_3                2                 34
D36V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 29
  CLUS_2                4                 48
  CLUS_3                2                 30

Clustering(37) Variable = Xq gain mutation analysis
D37V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                34
  CLUS_2               4                21
  CLUS_3               1                53
D37V2, multiclass
D37V3, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                40
  CLUS_2               3                22
  CLUS_3               1                26
D37V4, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                18
  CLUS_2               1                23
  CLUS_3               2                47
D37V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                37
  CLUS_2               0                37
  CLUS_3               2                34
D37V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                28
  CLUS_2               2                50
  CLUS_3               2                30

Clustering(38) Variable = 1q loss mutation analysis
D38V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                35
  CLUS_2               2                23
  CLUS_3               1                53
D38V2, multiclass
D38V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                41
  CLUS_2               2                23
  CLUS_3               1                26
D38V4, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                18
  CLUS_2               1                23
  CLUS_3               0                49
D38V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                37
  CLUS_3               1                35
D38V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                29
  CLUS_2               1                51
  CLUS_3               1                31

Clustering(39) Variable = 2p loss mutation analysis
D39V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                34
  CLUS_2               1                24
  CLUS_3               1                53
D39V2, multiclass
D39V3, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2                91 
       TCGA-BI-A0VR        TCGA-BI-A0VS        TCGA-BI-A20A        TCGA-C5-A0TN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1BE        TCGA-C5-A1BF        TCGA-C5-A1BI        TCGA-C5-A1BJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1BK        TCGA-C5-A1BL        TCGA-C5-A1BM        TCGA-C5-A1BN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1BQ        TCGA-C5-A1M5        TCGA-C5-A1M6        TCGA-C5-A1M7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1M8        TCGA-C5-A1M9        TCGA-C5-A1ME        TCGA-C5-A1MF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1MH        TCGA-C5-A1MI        TCGA-C5-A1MJ        TCGA-C5-A1MK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1ML        TCGA-C5-A1MN        TCGA-C5-A1MP        TCGA-C5-A2LT 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A2LV        TCGA-C5-A2LX        TCGA-C5-A2LY        TCGA-C5-A2LZ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A2M1        TCGA-C5-A2M2        TCGA-C5-A3HD        TCGA-C5-A3HF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A3HL        TCGA-DG-A2KL        TCGA-DG-A2KM        TCGA-DR-A0ZL 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DR-A0ZM        TCGA-DS-A0VK        TCGA-DS-A0VL        TCGA-DS-A0VM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DS-A0VN        TCGA-DS-A3LQ        TCGA-EA-A1QT        TCGA-EA-A3HQ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EA-A3HS        TCGA-EA-A3HT        TCGA-EA-A3QE        TCGA-EK-A2GZ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2H0        TCGA-EK-A2H1        TCGA-EK-A2IP        TCGA-EK-A2PG 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2PI        TCGA-EK-A2PK        TCGA-EK-A2PL        TCGA-EK-A2PM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2R7        TCGA-EK-A2R8        TCGA-EK-A2RA        TCGA-EK-A2RB 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2RC        TCGA-EK-A2RE        TCGA-EK-A2RJ        TCGA-EK-A2RK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2RL        TCGA-EK-A2RM        TCGA-EK-A2RO        TCGA-EK-A3GJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A3GK        TCGA-EK-A3GM        TCGA-EK-A3GN        TCGA-EX-A1H5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FU-A23K        TCGA-FU-A23L        TCGA-FU-A2QG        TCGA-FU-A3EO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FU-A3HY        TCGA-FU-A3HZ        TCGA-FU-A3NI        TCGA-HG-A2PA 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-HM-A3JJ        TCGA-IR-A3L7        TCGA-IR-A3LC        TCGA-IR-A3LH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-IR-A3LK        TCGA-IR-A3LL        TCGA-JX-A3Q8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D39V4, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2                91 
       TCGA-BI-A0VR        TCGA-BI-A0VS        TCGA-BI-A20A        TCGA-C5-A0TN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1BE        TCGA-C5-A1BF        TCGA-C5-A1BI        TCGA-C5-A1BJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1BK        TCGA-C5-A1BL        TCGA-C5-A1BM        TCGA-C5-A1BN 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1BQ        TCGA-C5-A1M5        TCGA-C5-A1M6        TCGA-C5-A1M7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1M8        TCGA-C5-A1M9        TCGA-C5-A1ME        TCGA-C5-A1MF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1MH        TCGA-C5-A1MI        TCGA-C5-A1MJ        TCGA-C5-A1MK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A1ML        TCGA-C5-A1MN        TCGA-C5-A1MP        TCGA-C5-A2LT 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A2LV        TCGA-C5-A2LX        TCGA-C5-A2LY        TCGA-C5-A2LZ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A2M1        TCGA-C5-A2M2        TCGA-C5-A3HD        TCGA-C5-A3HF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-C5-A3HL        TCGA-DG-A2KL        TCGA-DG-A2KM        TCGA-DR-A0ZL 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DR-A0ZM        TCGA-DS-A0VK        TCGA-DS-A0VL        TCGA-DS-A0VM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DS-A0VN        TCGA-DS-A3LQ        TCGA-EA-A1QT        TCGA-EA-A3HQ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EA-A3HS        TCGA-EA-A3HT        TCGA-EA-A3QE        TCGA-EK-A2GZ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2H0        TCGA-EK-A2H1        TCGA-EK-A2IP        TCGA-EK-A2PG 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2PI        TCGA-EK-A2PK        TCGA-EK-A2PL        TCGA-EK-A2PM 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2R7        TCGA-EK-A2R8        TCGA-EK-A2RA        TCGA-EK-A2RB 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2RC        TCGA-EK-A2RE        TCGA-EK-A2RJ        TCGA-EK-A2RK 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A2RL        TCGA-EK-A2RM        TCGA-EK-A2RO        TCGA-EK-A3GJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EK-A3GK        TCGA-EK-A3GM        TCGA-EK-A3GN        TCGA-EX-A1H5 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FU-A23K        TCGA-FU-A23L        TCGA-FU-A2QG        TCGA-FU-A3EO 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-FU-A3HY        TCGA-FU-A3HZ        TCGA-FU-A3NI        TCGA-HG-A2PA 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-HM-A3JJ        TCGA-IR-A3L7        TCGA-IR-A3LC        TCGA-IR-A3LH 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-IR-A3LK        TCGA-IR-A3LL        TCGA-JX-A3Q8 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
D39V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                36
  CLUS_3               0                36
D39V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                30
  CLUS_2               2                50
  CLUS_3               1                31

Clustering(40) Variable = 2q loss mutation analysis
D40V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               3                32
  CLUS_2               1                24
  CLUS_3               1                53
D40V2, multiclass
D40V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               4                37
  CLUS_2               0                25
  CLUS_3               0                27
D40V4, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                20
  CLUS_2               0                24
  CLUS_3               4                45
D40V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               2                35
  CLUS_3               1                35
D40V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                29
  CLUS_2               3                49
  CLUS_3               1                31

Clustering(41) Variable = 3p loss mutation analysis
D41V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               6                29
  CLUS_2               7                18
  CLUS_3              13                41
D41V2, multiclass
D41V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              10                31
  CLUS_2               8                17
  CLUS_3               6                21
D41V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               9                11
  CLUS_2               4                20
  CLUS_3              11                38
D41V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              15                26
  CLUS_2               8                29
  CLUS_3               3                33
D41V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               1                29
  CLUS_2              14                38
  CLUS_3              11                21

Clustering(42) Variable = 4p loss mutation analysis
D42V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              13                22
  CLUS_2              14                11
  CLUS_3              10                44
D42V2, multiclass
D42V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              17                24
  CLUS_2               9                16
  CLUS_3               9                18
D42V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               8                12
  CLUS_2               9                15
  CLUS_3              18                31
D42V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              18                23
  CLUS_2               8                29
  CLUS_3              11                25
D42V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               8                22
  CLUS_2              18                34
  CLUS_3              11                21

Clustering(43) Variable = 4q loss mutation analysis
D43V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               5                30
  CLUS_2              15                10
  CLUS_3               3                51
D43V2, multiclass
D43V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               5                36
  CLUS_2               8                17
  CLUS_3               9                18
D43V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               7                13
  CLUS_2               7                17
  CLUS_3               8                41
D43V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              10                31
  CLUS_2               5                32
  CLUS_3               8                28
D43V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               7                23
  CLUS_2               8                44
  CLUS_3               8                24

Clustering(44) Variable = 5p loss mutation analysis
D44V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                34
  CLUS_2               1                24
  CLUS_3               1                53
D44V2, multiclass
D44V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                25
  CLUS_3               1                26
D44V4, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                20
  CLUS_2               2                22
  CLUS_3               1                48
D44V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                40
  CLUS_2               1                36
  CLUS_3               1                35
D44V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                29
  CLUS_2               2                50
  CLUS_3               0                32

Clustering(45) Variable = 5q loss mutation analysis
D45V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               5                30
  CLUS_2               8                17
  CLUS_3               4                50
D45V2, multiclass
D45V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               8                33
  CLUS_2               5                20
  CLUS_3               4                23
D45V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               6                14
  CLUS_2               4                20
  CLUS_3               7                42
D45V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              10                31
  CLUS_2               3                34
  CLUS_3               4                32
D45V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                29
  CLUS_2               8                44
  CLUS_3               8                24

Clustering(46) Variable = 6p loss mutation analysis
D46V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                33
  CLUS_2               2                23
  CLUS_3               9                45
D46V2, multiclass
D46V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               7                34
  CLUS_2               2                23
  CLUS_3               1                26
D46V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                19
  CLUS_2               1                23
  CLUS_3               8                41
D46V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               6                35
  CLUS_2               4                33
  CLUS_3               3                33
D46V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                26
  CLUS_2               5                47
  CLUS_3               4                28

Clustering(47) Variable = 6q loss mutation analysis
D47V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                29
  CLUS_2               5                20
  CLUS_3              12                42
D47V2, multiclass
D47V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              10                31
  CLUS_2               3                22
  CLUS_3               5                22
D47V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                17
  CLUS_2               3                21
  CLUS_3              12                37
D47V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              11                30
  CLUS_2               6                31
  CLUS_3               6                30
D47V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                24
  CLUS_2               9                43
  CLUS_3               8                24

Clustering(48) Variable = 7p loss mutation analysis
D48V1, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               3                32
  CLUS_2               2                23
  CLUS_3               1                53
D48V2, multiclass
D48V3, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               1                40
  CLUS_2               0                25
  CLUS_3               5                22
D48V4, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               0                20
  CLUS_2               4                20
  CLUS_3               2                47
D48V5, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               0                37
  CLUS_3               4                32
D48V6, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               3                27
  CLUS_2               2                50
  CLUS_3               1                31

Clustering(49) Variable = 7q loss mutation analysis
D49V1, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               3                32
  CLUS_2               5                20
  CLUS_3               5                49
D49V2, multiclass
D49V3, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                40
  CLUS_2               6                19
  CLUS_3               6                21
D49V4, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               7                13
  CLUS_2               5                19
  CLUS_3               1                48
D49V5, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               7                34
  CLUS_2               0                37
  CLUS_3               6                30
D49V6, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               3                27
  CLUS_2               3                49
  CLUS_3               7                25

Clustering(50) Variable = 8p loss mutation analysis
D50V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               9                26
  CLUS_2               8                17
  CLUS_3              10                44
D50V2, multiclass
D50V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              11                30
  CLUS_2               9                16
  CLUS_3               4                23
D50V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               4                16
  CLUS_2               6                18
  CLUS_3              14                35
D50V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              10                31
  CLUS_2               8                29
  CLUS_3               9                27
D50V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               8                22
  CLUS_2              12                40
  CLUS_3               7                25

Clustering(51) Variable = 8q loss mutation analysis
D51V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                34
  CLUS_2               3                22
  CLUS_3               3                51
D51V2, multiclass
D51V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                41
  CLUS_2               3                22
  CLUS_3               3                24
D51V4, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                18
  CLUS_2               3                21
  CLUS_3               1                48
D51V5, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                36
  CLUS_3               4                32
D51V6, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               5                25
  CLUS_2               0                52
  CLUS_3               2                30

Clustering(52) Variable = 9p loss mutation analysis
D52V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                32
  CLUS_2               4                21
  CLUS_3               2                52
D52V2, multiclass
D52V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               4                21
  CLUS_3               2                25
D52V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                17
  CLUS_2               2                22
  CLUS_3               3                46
D52V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                36
  CLUS_2               1                36
  CLUS_3               3                33
D52V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                27
  CLUS_2               2                50
  CLUS_3               4                28

Clustering(53) Variable = 9q loss mutation analysis
D53V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               2                33
  CLUS_2               4                21
  CLUS_3               4                50
D53V2, multiclass
D53V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               2                39
  CLUS_2               1                24
  CLUS_3               4                23
D53V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                19
  CLUS_2               4                20
  CLUS_3               2                47
D53V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                38
  CLUS_2               3                34
  CLUS_3               4                32
D53V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               6                24
  CLUS_2               2                50
  CLUS_3               2                30

Clustering(54) Variable = 10p loss mutation analysis
D54V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                5                 30
  CLUS_2                8                 17
  CLUS_3                7                 47
D54V2, multiclass
D54V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                6                 35
  CLUS_2                7                 18
  CLUS_3                5                 22
D54V4, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                5                 19
  CLUS_3                8                 41
D54V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                5                 32
  CLUS_3                8                 28
D54V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                5                 25
  CLUS_2                7                 45
  CLUS_3                8                 24

Clustering(55) Variable = 10q loss mutation analysis
D55V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                5                 30
  CLUS_2                8                 17
  CLUS_3                9                 45
D55V2, multiclass
D55V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                6                 19
  CLUS_3                6                 21
D55V4, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                7                 17
  CLUS_3                8                 41
D55V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                5                 32
  CLUS_3               10                 26
D55V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                 24
  CLUS_2               10                 42
  CLUS_3                6                 26

Clustering(56) Variable = 11p loss mutation analysis
D56V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                7                 28
  CLUS_2                9                 16
  CLUS_3                7                 47
D56V2, multiclass
D56V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                8                 17
  CLUS_3                7                 20
D56V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                6                 18
  CLUS_3               12                 37
D56V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                8                 33
  CLUS_2                5                 32
  CLUS_3               10                 26
D56V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                6                 24
  CLUS_2                9                 43
  CLUS_3                8                 24

Clustering(57) Variable = 11q loss mutation analysis
D57V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               15                 20
  CLUS_2                5                 20
  CLUS_3                5                 49
D57V2, multiclass
D57V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                6                 19
  CLUS_3                6                 21
D57V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                 17
  CLUS_2                5                 19
  CLUS_3               11                 38
D57V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                8                 33
  CLUS_2                6                 31
  CLUS_3               11                 25
D57V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                9                 21
  CLUS_2               10                 42
  CLUS_3                6                 26

Clustering(58) Variable = 12p loss mutation analysis
D58V1, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                4                 31
  CLUS_2                6                 19
  CLUS_3                5                 49
D58V2, multiclass
D58V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                8                 33
  CLUS_2                5                 20
  CLUS_3                1                 26
D58V4, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                 17
  CLUS_2                3                 21
  CLUS_3                8                 41
D58V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                8                 33
  CLUS_2                3                 34
  CLUS_3                4                 32
D58V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 28
  CLUS_2                7                 45
  CLUS_3                6                 26

Clustering(59) Variable = 12q loss mutation analysis
D59V1, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 34
  CLUS_2                3                 22
  CLUS_3                0                 54
D59V2, multiclass
D59V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                2                 23
  CLUS_3                0                 27
D59V4, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                0                 24
  CLUS_3                3                 46
D59V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 36
  CLUS_3                1                 35
D59V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 29
  CLUS_2                1                 51
  CLUS_3                2                 30

Clustering(60) Variable = 13q loss mutation analysis
D60V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                8                 27
  CLUS_2                5                 20
  CLUS_3                8                 46
D60V2, multiclass
D60V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                4                 21
  CLUS_3                6                 21
D60V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                3                 21
  CLUS_3                9                 40
D60V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                8                 33
  CLUS_2                6                 31
  CLUS_3                7                 29
D60V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                9                 43
  CLUS_3                9                 23

Clustering(61) Variable = 14q loss mutation analysis
D61V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                 34
  CLUS_2                3                 22
  CLUS_3                3                 51
D61V2, multiclass
D61V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                0                 41
  CLUS_2                1                 24
  CLUS_3                5                 22
D61V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                4                 20
  CLUS_3                1                 48
D61V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                0                 37
  CLUS_3                5                 31
D61V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                 25
  CLUS_2                0                 52
  CLUS_3                2                 30

Clustering(62) Variable = 15q loss mutation analysis
D62V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                2                 33
  CLUS_2                4                 21
  CLUS_3                2                 52
D62V2, multiclass
D62V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                4                 21
  CLUS_3                1                 26
D62V4, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                2                 22
  CLUS_3                4                 45
D62V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                2                 35
  CLUS_3                3                 33
D62V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                3                 49
  CLUS_3                2                 30

Clustering(63) Variable = 16p loss mutation analysis
D63V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                2                 33
  CLUS_2                2                 23
  CLUS_3                3                 51
D63V2, multiclass
D63V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                2                 23
  CLUS_3                2                 25
D63V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                2                 22
  CLUS_3                3                 46
D63V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                2                 35
  CLUS_3                3                 33
D63V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                1                 51
  CLUS_3                3                 29

Clustering(64) Variable = 16q loss mutation analysis
D64V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                 31
  CLUS_2                3                 22
  CLUS_3                6                 48
D64V2, multiclass
D64V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                2                 23
  CLUS_3                5                 22
D64V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                5                 19
  CLUS_3                3                 46
D64V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                5                 32
  CLUS_3                5                 31
D64V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                8                 22
  CLUS_2                2                 50
  CLUS_3                3                 29

Clustering(65) Variable = 17p loss mutation analysis
D65V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                8                 27
  CLUS_2               11                 14
  CLUS_3                7                 47
D65V2, multiclass
D65V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               12                 29
  CLUS_2                8                 17
  CLUS_3                4                 23
D65V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                5                 19
  CLUS_3               14                 35
D65V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               15                 26
  CLUS_2                7                 30
  CLUS_3                4                 32
D65V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                 27
  CLUS_2               13                 39
  CLUS_3               10                 22

Clustering(66) Variable = 17q loss mutation analysis
D66V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 34
  CLUS_2                1                 24
  CLUS_3                3                 51
D66V2, multiclass
D66V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                1                 24
  CLUS_3                0                 27
D66V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                1                 23
  CLUS_3                3                 46
D66V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                2                 35
  CLUS_3                0                 36
D66V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                 30
  CLUS_2                3                 49
  CLUS_3                2                 30

Clustering(67) Variable = 18p loss mutation analysis
D67V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 31
  CLUS_2                6                 19
  CLUS_3                6                 48
D67V2, multiclass
D67V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                6                 19
  CLUS_3                7                 20
D67V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                6                 18
  CLUS_3                4                 45
D67V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                6                 35
  CLUS_2                3                 34
  CLUS_3                7                 29
D67V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                8                 22
  CLUS_2                4                 48
  CLUS_3                4                 28

Clustering(68) Variable = 18q loss mutation analysis
D68V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                5                 30
  CLUS_2                7                 18
  CLUS_3               10                 44
D68V2, multiclass
D68V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                7                 18
  CLUS_3               10                 17
D68V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                5                 15
  CLUS_2               10                 14
  CLUS_3                4                 45
D68V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                7                 34
  CLUS_2                4                 33
  CLUS_3               11                 25
D68V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               12                 18
  CLUS_2                4                 48
  CLUS_3                6                 26

Clustering(69) Variable = 19p loss mutation analysis
D69V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                 32
  CLUS_2                4                 21
  CLUS_3                4                 50
D69V2, multiclass
D69V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                5                 20
  CLUS_3                3                 24
D69V4, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                2                 22
  CLUS_3                4                 45
D69V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                1                 36
  CLUS_3                5                 31
D69V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                5                 25
  CLUS_2                0                 52
  CLUS_3                6                 26

Clustering(70) Variable = 19q loss mutation analysis
D70V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 32
  CLUS_2                0                 25
  CLUS_3                3                 51
D70V2, multiclass
D70V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                3                 22
  CLUS_3                1                 26
D70V4, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                1                 23
  CLUS_3                4                 45
D70V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 36
  CLUS_3                3                 33
D70V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                0                 52
  CLUS_3                3                 29

Clustering(71) Variable = 20p loss mutation analysis
D71V1, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                3                 32
  CLUS_2                1                 24
  CLUS_3                1                 53
D71V2, multiclass
D71V3, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                 24
  CLUS_3                0                 27
D71V4, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                0                 24
  CLUS_3                2                 47
D71V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                2                 35
  CLUS_3                1                 35
D71V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 28
  CLUS_2                1                 51
  CLUS_3                2                 30

Clustering(72) Variable = 21q loss mutation analysis
D72V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                6                 29
  CLUS_2                7                 18
  CLUS_3                0                 54
D72V2, multiclass
D72V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                4                 21
  CLUS_3                4                 23
D72V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                3                 21
  CLUS_3                5                 44
D72V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                5                 36
  CLUS_2                4                 33
  CLUS_3                4                 32
D72V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                7                 45
  CLUS_3                3                 29

Clustering(73) Variable = 22q loss mutation analysis
D73V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 32
  CLUS_2                4                 21
  CLUS_3                5                 49
D73V2, multiclass
D73V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 38
  CLUS_2                4                 21
  CLUS_3                3                 24
D73V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                2                 22
  CLUS_3                3                 46
D73V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 37
  CLUS_2                4                 33
  CLUS_3                4                 32
D73V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 27
  CLUS_2                5                 47
  CLUS_3                4                 28
                     V1                      V2                      V3 
              "CN_CNMF"      "METHLYATION_CNMF"          "MRNASEQ_CNMF" 
                     V4                      V5                      V6 
"MRNASEQ_CHIERARCHICAL"           "MIRSEQ_CNMF"  "MIRSEQ_CHIERARCHICAL" 
> q(save="no")
