
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/399181/broad_values_by_arm.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/SKCM-NF1_Any_Mutants/3157448/1.GDAC_mergedClustering.Finished/SKCM-NF1_Any_Mutants.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=SKCM-NF1_Any_Mutants", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"                      "-oT=SKCM-NF1_Any_Mutants"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=31, in cluster file=31, common to both=31
[1] "Reduce the number of clustering variables from 80 to 44."
[1] 44 31
[1] "1p gain mutation analysis"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                6                25 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                6                25 
[1] "1q gain mutation analysis"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               11                20 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               11                20 
[1] "3p gain mutation analysis"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
                5                26 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
                5                26 
[1] "3q gain mutation analysis"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
                6                25 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
                6                25 
[1] "5p gain mutation analysis"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                5                26 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                5                26 
[1] "5q gain mutation analysis"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                4                27 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                4                27 
[1] "6p gain mutation analysis"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               12                19 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               12                19 
[1] "7p gain mutation analysis"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               12                19 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               12                19 
[1] "7q gain mutation analysis"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               11                20 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               11                20 
[1] "8p gain mutation analysis"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                6                25 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                6                25 
[1] "8q gain mutation analysis"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
                7                24 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
                7                24 
[1] "13q gain mutation analysis"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 3                 28 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 3                 28 
[1] "14q gain mutation analysis"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 5                 26 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 5                 26 
[1] "15q gain mutation analysis"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 5                 26 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 5                 26 
[1] "17q gain mutation analysis"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 5                 26 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 5                 26 
[1] "18p gain mutation analysis"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 4                 27 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 4                 27 
[1] "19p gain mutation analysis"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 4                 27 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 4                 27 
[1] "19q gain mutation analysis"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 4                 27 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 4                 27 
[1] "20p gain mutation analysis"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                 8                 23 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                 8                 23 
[1] "20q gain mutation analysis"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                10                 21 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                10                 21 
[1] "22q gain mutation analysis"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                11                 20 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                11                 20 
[1] "1p loss mutation analysis"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
                3                28 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
                3                28 
[1] "2q loss mutation analysis"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                3                28 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                3                28 
[1] "4p loss mutation analysis"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                5                26 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                5                26 
[1] "4q loss mutation analysis"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                5                26 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                5                26 
[1] "5p loss mutation analysis"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                5                26 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                5                26 
[1] "5q loss mutation analysis"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                7                24 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                7                24 
[1] "6q loss mutation analysis"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               10                21 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               10                21 
[1] "8p loss mutation analysis"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
                3                28 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
                3                28 
[1] "9p loss mutation analysis"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               17                14 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               17                14 
[1] "9q loss mutation analysis"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               15                16 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               15                16 
[1] "10p loss mutation analysis"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 8                 23 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 8                 23 
[1] "10q loss mutation analysis"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 8                 23 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                 8                 23 
[1] "11p loss mutation analysis"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                11                 20 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                11                 20 
[1] "11q loss mutation analysis"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                10                 21 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                10                 21 
[1] "12p loss mutation analysis"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 3                 28 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 3                 28 
[1] "12q loss mutation analysis"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 4                 27 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 4                 27 
[1] "13q loss mutation analysis"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 7                 24 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 7                 24 
[1] "14q loss mutation analysis"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                 4                 27 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                 4                 27 
[1] "16q loss mutation analysis"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 5                 26 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 5                 26 
[1] "17p loss mutation analysis"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                 7                 24 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                 7                 24 
[1] "18p loss mutation analysis"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 5                 26 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 5                 26 
[1] "18q loss mutation analysis"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 4                 27 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 4                 27 
[1] "21q loss mutation analysis"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 7                 24 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 7                 24 
[1] "data2feature, selection=ALL"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "RPPA_CNMF"            
[4] "RPPA_CHIERARCHICAL"    "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL"
[7] "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 

Input Data has 8 rows and 31 columns.

Variable 1:'CN_CNMF':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "RPPA_CNMF"            
[4] "RPPA_CHIERARCHICAL"    "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL"
[7] "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 31 columns, 0 survival variables, and 8 non-survival variables.
CN_CNMF, nv=2, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=2, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=2, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=2, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=2, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1p gain mutation analysis
D1V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      2    4
  1P GAIN WILD-TYPE   14   11
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                14
  CLUS_2               4                11
D1V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      2    4
  1P GAIN WILD-TYPE   12   13
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                12
  CLUS_2               4                13
D1V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      0    3
  1P GAIN WILD-TYPE    7   13
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               3                13
D1V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      0    3
  1P GAIN WILD-TYPE    4   16
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               3                16
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               1                10
  CLUS_3               4                 8
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               0                 8
  CLUS_3               1                 6
  CLUS_4               3                 7
D1V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      3    3
  1P GAIN WILD-TYPE   13   12
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               3                12
D1V8, multiclass

Clustering(2) Variable = 1q gain mutation analysis
D2V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      3    8
  1Q GAIN WILD-TYPE   13    7
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               8                 7
D2V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      2    9
  1Q GAIN WILD-TYPE   12    8
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                12
  CLUS_2               9                 8
D2V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      3    5
  1Q GAIN WILD-TYPE    4   11
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                 4
  CLUS_2               5                11
D2V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      1    7
  1Q GAIN WILD-TYPE    3   12
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                 3
  CLUS_2               7                12
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                 5
  CLUS_2               2                 9
  CLUS_3               6                 6
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               1                 7
  CLUS_3               2                 5
  CLUS_4               5                 5
D2V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      4    7
  1Q GAIN WILD-TYPE   12    8
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                12
  CLUS_2               7                 8
D2V8, multiclass

Clustering(3) Variable = 3p gain mutation analysis
D3V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      3    2
  3P GAIN WILD-TYPE   13   13
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               2                13
D3V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      2    3
  3P GAIN WILD-TYPE   12   14
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               2                12
  CLUS_2               3                14
D3V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      0    3
  3P GAIN WILD-TYPE    7   13
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               3                13
D3V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      0    3
  3P GAIN WILD-TYPE    4   16
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               3                16
D3V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               3                 8
  CLUS_3               2                10
D3V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               1                 7
  CLUS_3               0                 7
  CLUS_4               2                 8
D3V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      2    3
  3P GAIN WILD-TYPE   14   12
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               2                14
  CLUS_2               3                12
D3V8, multiclass

Clustering(4) Variable = 3q gain mutation analysis
D4V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      3    3
  3Q GAIN WILD-TYPE   13   12
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               3                12
D4V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      2    4
  3Q GAIN WILD-TYPE   12   13
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               2                12
  CLUS_2               4                13
D4V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      1    3
  3Q GAIN WILD-TYPE    6   13
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               3                13
D4V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      1    3
  3Q GAIN WILD-TYPE    3   16
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                 3
  CLUS_2               3                16
D4V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               3                 8
  CLUS_3               3                 9
D4V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               1                 7
  CLUS_3               1                 6
  CLUS_4               2                 8
D4V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      3    3
  3Q GAIN WILD-TYPE   13   12
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               3                12
D4V8, multiclass

Clustering(5) Variable = 5p gain mutation analysis
D5V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      2    3
  5P GAIN WILD-TYPE   14   12
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                14
  CLUS_2               3                12
D5V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      2    3
  5P GAIN WILD-TYPE   12   14
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                12
  CLUS_2               3                14
D5V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      0    2
  5P GAIN WILD-TYPE    7   14
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               2                14
D5V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      0    2
  5P GAIN WILD-TYPE    4   17
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               2                17
D5V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               2                 9
  CLUS_3               2                10
D5V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                 7
  CLUS_3               1                 6
  CLUS_4               2                 8
D5V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      2    3
  5P GAIN WILD-TYPE   14   12
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                14
  CLUS_2               3                12
D5V8, multiclass

Clustering(6) Variable = 5q gain mutation analysis
D6V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      2    2
  5Q GAIN WILD-TYPE   14   13
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                14
  CLUS_2               2                13
D6V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      2    2
  5Q GAIN WILD-TYPE   12   15
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                12
  CLUS_2               2                15
D6V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      0    2
  5Q GAIN WILD-TYPE    7   14
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               2                14
D6V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      0    2
  5Q GAIN WILD-TYPE    4   17
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               2                17
D6V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               2                 9
  CLUS_3               1                11
D6V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                 7
  CLUS_3               0                 7
  CLUS_4               2                 8
D6V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      1    3
  5Q GAIN WILD-TYPE   15   12
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               3                12
D6V8, multiclass

Clustering(7) Variable = 6p gain mutation analysis
D7V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      5    7
  6P GAIN WILD-TYPE   11    8
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               7                 8
D7V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      6    6
  6P GAIN WILD-TYPE    8   11
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               6                 8
  CLUS_2               6                11
D7V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      1    7
  6P GAIN WILD-TYPE    6    9
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               7                 9
D7V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      0    8
  6P GAIN WILD-TYPE    4   11
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               8                11
D7V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                 5
  CLUS_2               4                 7
  CLUS_3               5                 7
D7V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               2                 6
  CLUS_3               2                 5
  CLUS_4               5                 5
D7V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      5    7
  6P GAIN WILD-TYPE   11    8
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               7                 8
D7V8, multiclass

Clustering(8) Variable = 7p gain mutation analysis
D8V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED      6    6
  7P GAIN WILD-TYPE   10    9
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               6                10
  CLUS_2               6                 9
D8V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED      6    6
  7P GAIN WILD-TYPE    8   11
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               6                 8
  CLUS_2               6                11
D8V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED      3    4
  7P GAIN WILD-TYPE    4   12
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               3                 4
  CLUS_2               4                12
D8V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED      1    6
  7P GAIN WILD-TYPE    3   13
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               1                 3
  CLUS_2               6                13
D8V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               3                 5
  CLUS_2               4                 7
  CLUS_3               5                 7
D8V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               3                 5
  CLUS_3               3                 4
  CLUS_4               4                 6
D8V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED      6    6
  7P GAIN WILD-TYPE   10    9
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               6                10
  CLUS_2               6                 9
D8V8, multiclass

Clustering(9) Variable = 7q gain mutation analysis
D9V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED      5    6
  7Q GAIN WILD-TYPE   11    9
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               6                 9
D9V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED      5    6
  7Q GAIN WILD-TYPE    9   11
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               5                 9
  CLUS_2               6                11
D9V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED      3    4
  7Q GAIN WILD-TYPE    4   12
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                 4
  CLUS_2               4                12
D9V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED      1    6
  7Q GAIN WILD-TYPE    3   13
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               1                 3
  CLUS_2               6                13
D9V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                 5
  CLUS_2               4                 7
  CLUS_3               4                 8
D9V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               3                 5
  CLUS_3               2                 5
  CLUS_4               4                 6
D9V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED      5    6
  7Q GAIN WILD-TYPE   11    9
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               6                 9
D9V8, multiclass

Clustering(10) Variable = 8p gain mutation analysis
D10V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      3    3
  8P GAIN WILD-TYPE   13   12
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               3                12
D10V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      2    4
  8P GAIN WILD-TYPE   12   13
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               2                12
  CLUS_2               4                13
D10V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      0    2
  8P GAIN WILD-TYPE    7   14
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               2                14
D10V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      0    2
  8P GAIN WILD-TYPE    4   17
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               2                17
D10V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               3                 8
  CLUS_3               2                10
D10V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               2                 6
  CLUS_3               1                 6
  CLUS_4               2                 8
D10V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      3    3
  8P GAIN WILD-TYPE   13   12
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               3                12
D10V8, multiclass

Clustering(11) Variable = 8q gain mutation analysis
D11V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      5    2
  8Q GAIN WILD-TYPE   11   13
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               2                13
D11V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      4    3
  8Q GAIN WILD-TYPE   10   14
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                10
  CLUS_2               3                14
D11V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      0    2
  8Q GAIN WILD-TYPE    7   14
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               2                14
D11V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      0    2
  8Q GAIN WILD-TYPE    4   17
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               2                17
D11V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               2                 6
  CLUS_2               3                 8
  CLUS_3               2                10
D11V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               2                 6
  CLUS_3               2                 5
  CLUS_4               1                 9
D11V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      5    2
  8Q GAIN WILD-TYPE   11   13
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5                11
  CLUS_2               2                13
D11V8, multiclass

Clustering(12) Variable = 13q gain mutation analysis
D12V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      1    2
  13Q GAIN WILD-TYPE   15   13
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 13
D12V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      1    2
  13Q GAIN WILD-TYPE   13   15
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                 13
  CLUS_2                2                 15
D12V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      0    1
  13Q GAIN WILD-TYPE    7   15
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                1                 15
D12V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      0    1
  13Q GAIN WILD-TYPE    4   18
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                1                 18
D12V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                  7
  CLUS_2                1                 10
  CLUS_3                1                 11
D12V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                0                  8
  CLUS_3                0                  7
  CLUS_4                2                  8
D12V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      1    2
  13Q GAIN WILD-TYPE   15   13
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 13
D12V8, multiclass

Clustering(13) Variable = 14q gain mutation analysis
D13V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      2    3
  14Q GAIN WILD-TYPE   14   12
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                3                 12
D13V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      0    5
  14Q GAIN WILD-TYPE   14   12
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 14
  CLUS_2                5                 12
D13V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      0    3
  14Q GAIN WILD-TYPE    7   13
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                3                 13
D13V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      0    3
  14Q GAIN WILD-TYPE    4   16
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                3                 16
D13V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                  7
  CLUS_2                2                  9
  CLUS_3                2                 10
D13V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                2                  6
  CLUS_3                0                  7
  CLUS_4                3                  7
D13V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      1    4
  14Q GAIN WILD-TYPE   15   11
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                4                 11
D13V8, multiclass

Clustering(14) Variable = 15q gain mutation analysis
D14V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      3    2
  15Q GAIN WILD-TYPE   13   13
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 13
D14V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      2    3
  15Q GAIN WILD-TYPE   12   14
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                2                 12
  CLUS_2                3                 14
D14V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      0    2
  15Q GAIN WILD-TYPE    7   14
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                2                 14
D14V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      0    2
  15Q GAIN WILD-TYPE    4   17
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                2                 17
D14V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                  5
  CLUS_2                2                  9
  CLUS_3                0                 12
D14V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                1                  7
  CLUS_3                0                  7
  CLUS_4                2                  8
D14V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      3    2
  15Q GAIN WILD-TYPE   13   13
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 13
D14V8, multiclass

Clustering(15) Variable = 17q gain mutation analysis
D15V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      3    2
  17Q GAIN WILD-TYPE   13   13
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 13
D15V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      2    3
  17Q GAIN WILD-TYPE   12   14
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 12
  CLUS_2                3                 14
D15V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      2    3
  17Q GAIN WILD-TYPE    5   13
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                  5
  CLUS_2                3                 13
D15V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      1    4
  17Q GAIN WILD-TYPE    3   15
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                  3
  CLUS_2                4                 15
D15V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                0                  8
  CLUS_2                3                  8
  CLUS_3                2                 10
D15V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                3                  5
  CLUS_3                1                  6
  CLUS_4                1                  9
D15V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      1    4
  17Q GAIN WILD-TYPE   15   11
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                4                 11
D15V8, multiclass

Clustering(16) Variable = 18p gain mutation analysis
D16V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      2    2
  18P GAIN WILD-TYPE   14   13
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 13
D16V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      2    2
  18P GAIN WILD-TYPE   12   15
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 12
  CLUS_2                2                 15
D16V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      0    2
  18P GAIN WILD-TYPE    7   14
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                2                 14
D16V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      0    2
  18P GAIN WILD-TYPE    4   17
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                2                 17
D16V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                  8
  CLUS_2                1                 10
  CLUS_3                3                  9
D16V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                  7
  CLUS_3                1                  6
  CLUS_4                2                  8
D16V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      1    3
  18P GAIN WILD-TYPE   15   12
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 12
D16V8, multiclass

Clustering(17) Variable = 19p gain mutation analysis
D17V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      1    3
  19P GAIN WILD-TYPE   15   12
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 12
D17V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      1    3
  19P GAIN WILD-TYPE   13   14
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 13
  CLUS_2                3                 14
D17V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      0    2
  19P GAIN WILD-TYPE    7   14
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                2                 14
D17V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      0    2
  19P GAIN WILD-TYPE    4   17
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                2                 17
D17V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                  6
  CLUS_2                0                 11
  CLUS_3                2                 10
D17V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                0                  8
  CLUS_3                0                  7
  CLUS_4                3                  7
D17V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED      1    3
  19P GAIN WILD-TYPE   15   12
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 12
D17V8, multiclass

Clustering(18) Variable = 19q gain mutation analysis
D18V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      1    3
  19Q GAIN WILD-TYPE   15   12
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 12
D18V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      1    3
  19Q GAIN WILD-TYPE   13   14
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 13
  CLUS_2                3                 14
D18V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      0    2
  19Q GAIN WILD-TYPE    7   14
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                2                 14
D18V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      0    2
  19Q GAIN WILD-TYPE    4   17
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                2                 17
D18V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                  6
  CLUS_2                0                 11
  CLUS_3                2                 10
D18V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                0                  8
  CLUS_3                0                  7
  CLUS_4                3                  7
D18V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      1    3
  19Q GAIN WILD-TYPE   15   12
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                3                 12
D18V8, multiclass

Clustering(19) Variable = 20p gain mutation analysis
D19V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED      4    4
  20P GAIN WILD-TYPE   12   11
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                4                 11
D19V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED      3    5
  20P GAIN WILD-TYPE   11   12
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                3                 11
  CLUS_2                5                 12
D19V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED      1    1
  20P GAIN WILD-TYPE    6   15
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                1                 15
D19V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED      0    2
  20P GAIN WILD-TYPE    4   17
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                2                 17
D19V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                3                  5
  CLUS_2                2                  9
  CLUS_3                3                  9
D19V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                1                  7
  CLUS_3                2                  5
  CLUS_4                2                  8
D19V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED      6    2
  20P GAIN WILD-TYPE   10   13
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                6                 10
  CLUS_2                2                 13
D19V8, multiclass

Clustering(20) Variable = 20q gain mutation analysis
D20V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED      4    6
  20Q GAIN WILD-TYPE   12    9
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                6                  9
D20V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED      4    6
  20Q GAIN WILD-TYPE   10   11
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                 10
  CLUS_2                6                 11
D20V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED      1    3
  20Q GAIN WILD-TYPE    6   13
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                3                 13
D20V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED      0    4
  20Q GAIN WILD-TYPE    4   15
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                4                 15
D20V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                  4
  CLUS_2                2                  9
  CLUS_3                4                  8
D20V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                1                  7
  CLUS_3                2                  5
  CLUS_4                4                  6
D20V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED      6    4
  20Q GAIN WILD-TYPE   10   11
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                6                 10
  CLUS_2                4                 11
D20V8, multiclass

Clustering(21) Variable = 22q gain mutation analysis
D21V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      5    6
  22Q GAIN WILD-TYPE   11    9
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                6                  9
D21V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      5    6
  22Q GAIN WILD-TYPE    9   11
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                5                  9
  CLUS_2                6                 11
D21V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      2    4
  22Q GAIN WILD-TYPE    5   12
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                  5
  CLUS_2                4                 12
D21V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      0    6
  22Q GAIN WILD-TYPE    4   13
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                6                 13
D21V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                  4
  CLUS_2                3                  8
  CLUS_3                4                  8
D21V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                3                  5
  CLUS_3                2                  5
  CLUS_4                4                  6
D21V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      6    5
  22Q GAIN WILD-TYPE   10   10
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                6                 10
  CLUS_2                5                 10
D21V8, multiclass

Clustering(22) Variable = 1p loss mutation analysis
D22V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED      0    3
  1P LOSS WILD-TYPE   16   12
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               3                12
D22V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED      1    2
  1P LOSS WILD-TYPE   13   15
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               1                13
  CLUS_2               2                15
D22V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED      0    2
  1P LOSS WILD-TYPE    7   14
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               2                14
D22V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED      0    2
  1P LOSS WILD-TYPE    4   17
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               2                17
D22V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                 6
  CLUS_2               0                11
  CLUS_3               1                11
D22V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               0                 8
  CLUS_3               0                 7
  CLUS_4               3                 7
D22V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED      1    2
  1P LOSS WILD-TYPE   15   13
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                13
D22V8, multiclass

Clustering(23) Variable = 2q loss mutation analysis
D23V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      2    1
  2Q LOSS WILD-TYPE   14   14
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               1                14
D23V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      0    3
  2Q LOSS WILD-TYPE   14   14
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                14
  CLUS_2               3                14
D23V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      0    3
  2Q LOSS WILD-TYPE    7   13
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               3                13
D23V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      0    3
  2Q LOSS WILD-TYPE    4   16
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               3                16
D23V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               1                10
  CLUS_3               1                11
D23V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                 7
  CLUS_3               0                 7
  CLUS_4               2                 8
D23V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      1    2
  2Q LOSS WILD-TYPE   15   13
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                13
D23V8, multiclass

Clustering(24) Variable = 4p loss mutation analysis
D24V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      2    3
  4P LOSS WILD-TYPE   14   12
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               3                12
D24V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      2    3
  4P LOSS WILD-TYPE   12   14
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                12
  CLUS_2               3                14
D24V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      1    3
  4P LOSS WILD-TYPE    6   13
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               3                13
D24V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      0    4
  4P LOSS WILD-TYPE    4   15
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               4                15
D24V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               4                 4
  CLUS_2               1                10
  CLUS_3               0                12
D24V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               0                 8
  CLUS_3               0                 7
  CLUS_4               3                 7
D24V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      4    1
  4P LOSS WILD-TYPE   12   14
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               4                12
  CLUS_2               1                14
D24V8, multiclass

Clustering(25) Variable = 4q loss mutation analysis
D25V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      3    2
  4Q LOSS WILD-TYPE   13   13
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               2                13
D25V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      3    2
  4Q LOSS WILD-TYPE   11   15
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                11
  CLUS_2               2                15
D25V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      0    4
  4Q LOSS WILD-TYPE    7   12
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               4                12
D25V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      0    4
  4Q LOSS WILD-TYPE    4   15
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               4                15
D25V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                 5
  CLUS_2               2                 9
  CLUS_3               0                12
D25V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                 7
  CLUS_3               0                 7
  CLUS_4               3                 7
D25V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      3    2
  4Q LOSS WILD-TYPE   13   13
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               2                13
D25V8, multiclass

Clustering(26) Variable = 5p loss mutation analysis
D26V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      4    1
  5P LOSS WILD-TYPE   12   14
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                12
  CLUS_2               1                14
D26V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      2    3
  5P LOSS WILD-TYPE   12   14
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                12
  CLUS_2               3                14
D26V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      0    4
  5P LOSS WILD-TYPE    7   12
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               4                12
D26V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      0    4
  5P LOSS WILD-TYPE    4   15
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               4                15
D26V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               3                 8
  CLUS_3               2                10
D26V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               2                 6
  CLUS_3               1                 6
  CLUS_4               1                 9
D26V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      3    2
  5P LOSS WILD-TYPE   13   13
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               2                13
D26V8, multiclass

Clustering(27) Variable = 5q loss mutation analysis
D27V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      5    2
  5Q LOSS WILD-TYPE   11   13
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               5                11
  CLUS_2               2                13
D27V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      4    3
  5Q LOSS WILD-TYPE   10   14
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               4                10
  CLUS_2               3                14
D27V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      1    4
  5Q LOSS WILD-TYPE    6   12
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               4                12
D27V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      1    4
  5Q LOSS WILD-TYPE    3   15
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                 3
  CLUS_2               4                15
D27V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               3                 8
  CLUS_3               4                 8
D27V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               2                 6
  CLUS_3               3                 4
  CLUS_4               1                 9
D27V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      5    2
  5Q LOSS WILD-TYPE   11   13
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               5                11
  CLUS_2               2                13
D27V8, multiclass

Clustering(28) Variable = 6q loss mutation analysis
D28V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      3    7
  6Q LOSS WILD-TYPE   13    8
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               7                 8
D28V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      4    6
  6Q LOSS WILD-TYPE   10   11
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               4                10
  CLUS_2               6                11
D28V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      3    4
  6Q LOSS WILD-TYPE    4   12
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                 4
  CLUS_2               4                12
D28V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      3    4
  6Q LOSS WILD-TYPE    1   15
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                 1
  CLUS_2               4                15
D28V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               3                 8
  CLUS_3               6                 6
D28V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               2                 6
  CLUS_3               4                 3
  CLUS_4               3                 7
D28V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      5    5
  6Q LOSS WILD-TYPE   11   10
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               5                11
  CLUS_2               5                10
D28V8, multiclass

Clustering(29) Variable = 8p loss mutation analysis
D29V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      1    2
  8P LOSS WILD-TYPE   15   13
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                13
D29V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      1    2
  8P LOSS WILD-TYPE   13   15
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               1                13
  CLUS_2               2                15
D29V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      2    1
  8P LOSS WILD-TYPE    5   15
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                 5
  CLUS_2               1                15
D29V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      1    2
  8P LOSS WILD-TYPE    3   17
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               1                 3
  CLUS_2               2                17
D29V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                 6
  CLUS_2               0                11
  CLUS_3               1                11
D29V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               0                 8
  CLUS_3               1                 6
  CLUS_4               1                 9
D29V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      3    0
  8P LOSS WILD-TYPE   13   15
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               0                15
D29V8, multiclass

Clustering(30) Variable = 9p loss mutation analysis
D30V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      6   11
  9P LOSS WILD-TYPE   10    4
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               6                10
  CLUS_2              11                 4
D30V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      5   12
  9P LOSS WILD-TYPE    9    5
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                 9
  CLUS_2              12                 5
D30V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      5    9
  9P LOSS WILD-TYPE    2    7
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                 2
  CLUS_2               9                 7
D30V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      3   11
  9P LOSS WILD-TYPE    1    8
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                 1
  CLUS_2              11                 8
D30V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                 3
  CLUS_2               4                 7
  CLUS_3               8                 4
D30V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               3                 5
  CLUS_3               5                 2
  CLUS_4               7                 3
D30V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      9    8
  9P LOSS WILD-TYPE    7    7
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               9                 7
  CLUS_2               8                 7
D30V8, multiclass

Clustering(31) Variable = 9q loss mutation analysis
D31V1, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      7    8
  9Q LOSS WILD-TYPE    9    7
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               7                 9
  CLUS_2               8                 7
D31V2, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      5   10
  9Q LOSS WILD-TYPE    9    7
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                 9
  CLUS_2              10                 7
D31V3, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      4    8
  9Q LOSS WILD-TYPE    3    8
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               4                 3
  CLUS_2               8                 8
D31V4, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      1   11
  9Q LOSS WILD-TYPE    3    8
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                 3
  CLUS_2              11                 8
D31V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               4                 4
  CLUS_2               6                 5
  CLUS_3               5                 7
D31V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               5                 3
  CLUS_3               2                 5
  CLUS_4               6                 4
D31V7, binary
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      6    9
  9Q LOSS WILD-TYPE   10    6
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               6                10
  CLUS_2               9                 6
D31V8, multiclass

Clustering(32) Variable = 10p loss mutation analysis
D32V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED      3    5
  10P LOSS WILD-TYPE   13   10
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                5                 10
D32V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED      2    6
  10P LOSS WILD-TYPE   12   11
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                2                 12
  CLUS_2                6                 11
D32V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED      1    6
  10P LOSS WILD-TYPE    6   10
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                6                 10
D32V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED      0    7
  10P LOSS WILD-TYPE    4   12
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                7                 12
D32V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                4                  4
  CLUS_2                3                  8
  CLUS_3                1                 11
D32V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                2                  6
  CLUS_3                0                  7
  CLUS_4                4                  6
D32V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED      3    5
  10P LOSS WILD-TYPE   13   10
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                5                 10
D32V8, multiclass

Clustering(33) Variable = 10q loss mutation analysis
D33V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED      3    5
  10Q LOSS WILD-TYPE   13   10
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                5                 10
D33V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED      2    6
  10Q LOSS WILD-TYPE   12   11
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                2                 12
  CLUS_2                6                 11
D33V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED      1    6
  10Q LOSS WILD-TYPE    6   10
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                6                 10
D33V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED      0    7
  10Q LOSS WILD-TYPE    4   12
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                7                 12
D33V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                4                  4
  CLUS_2                3                  8
  CLUS_3                1                 11
D33V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                2                  6
  CLUS_3                0                  7
  CLUS_4                3                  7
D33V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED      4    4
  10Q LOSS WILD-TYPE   12   11
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                4                 11
D33V8, multiclass

Clustering(34) Variable = 11p loss mutation analysis
D34V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      5    6
  11P LOSS WILD-TYPE   11    9
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                6                  9
D34V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      3    8
  11P LOSS WILD-TYPE   11    9
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                3                 11
  CLUS_2                8                  9
D34V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      3    6
  11P LOSS WILD-TYPE    4   10
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                3                  4
  CLUS_2                6                 10
D34V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      2    7
  11P LOSS WILD-TYPE    2   12
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                2                  2
  CLUS_2                7                 12
D34V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                3                  5
  CLUS_2                4                  7
  CLUS_3                4                  8
D34V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                4                  4
  CLUS_3                3                  4
  CLUS_4                3                  7
D34V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      6    5
  11P LOSS WILD-TYPE   10   10
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                6                 10
  CLUS_2                5                 10
D34V8, multiclass

Clustering(35) Variable = 11q loss mutation analysis
D35V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      4    6
  11Q LOSS WILD-TYPE   12    9
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                6                  9
D35V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      2    8
  11Q LOSS WILD-TYPE   12    9
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                 12
  CLUS_2                8                  9
D35V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      3    5
  11Q LOSS WILD-TYPE    4   11
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                  4
  CLUS_2                5                 11
D35V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      1    7
  11Q LOSS WILD-TYPE    3   12
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                  3
  CLUS_2                7                 12
D35V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                  7
  CLUS_2                4                  7
  CLUS_3                5                  7
D35V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                4                  4
  CLUS_3                2                  5
  CLUS_4                3                  7
D35V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      4    6
  11Q LOSS WILD-TYPE   12    9
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                6                  9
D35V8, multiclass

Clustering(36) Variable = 12p loss mutation analysis
D36V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      2    1
  12P LOSS WILD-TYPE   14   14
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                1                 14
D36V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      0    3
  12P LOSS WILD-TYPE   14   14
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 14
  CLUS_2                3                 14
D36V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      1    2
  12P LOSS WILD-TYPE    6   14
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                2                 14
D36V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      0    3
  12P LOSS WILD-TYPE    4   16
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                3                 16
D36V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                  6
  CLUS_2                1                 10
  CLUS_3                0                 12
D36V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                  7
  CLUS_3                0                  7
  CLUS_4                1                  9
D36V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      2    1
  12P LOSS WILD-TYPE   14   14
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                1                 14
D36V8, multiclass

Clustering(37) Variable = 12q loss mutation analysis
D37V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      2    2
  12Q LOSS WILD-TYPE   14   13
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 13
D37V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      0    4
  12Q LOSS WILD-TYPE   14   13
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 14
  CLUS_2                4                 13
D37V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      1    3
  12Q LOSS WILD-TYPE    6   13
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                3                 13
D37V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      0    4
  12Q LOSS WILD-TYPE    4   15
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                4                 15
D37V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                  6
  CLUS_2                1                 10
  CLUS_3                1                 11
D37V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                  7
  CLUS_3                0                  7
  CLUS_4                2                  8
D37V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      2    2
  12Q LOSS WILD-TYPE   14   13
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 13
D37V8, multiclass

Clustering(38) Variable = 13q loss mutation analysis
D38V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      4    3
  13Q LOSS WILD-TYPE   12   12
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                3                 12
D38V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      5    2
  13Q LOSS WILD-TYPE    9   15
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                5                  9
  CLUS_2                2                 15
D38V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      3    3
  13Q LOSS WILD-TYPE    4   13
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                  4
  CLUS_2                3                 13
D38V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      1    5
  13Q LOSS WILD-TYPE    3   14
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                1                  3
  CLUS_2                5                 14
D38V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                  6
  CLUS_2                4                  7
  CLUS_3                1                 11
D38V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                3                  5
  CLUS_3                1                  6
  CLUS_4                1                  9
D38V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      4    3
  13Q LOSS WILD-TYPE   12   12
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                3                 12
D38V8, multiclass

Clustering(39) Variable = 14q loss mutation analysis
D39V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      2    2
  14Q LOSS WILD-TYPE   14   13
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 13
D39V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      3    1
  14Q LOSS WILD-TYPE   11   16
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                3                 11
  CLUS_2                1                 16
D39V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      1    2
  14Q LOSS WILD-TYPE    6   14
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                2                 14
D39V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      0    3
  14Q LOSS WILD-TYPE    4   16
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                3                 16
D39V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                  6
  CLUS_2                2                  9
  CLUS_3                0                 12
D39V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                2                  6
  CLUS_3                0                  7
  CLUS_4                1                  9
D39V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      2    2
  14Q LOSS WILD-TYPE   14   13
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 13
D39V8, multiclass

Clustering(40) Variable = 16q loss mutation analysis
D40V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      4    1
  16Q LOSS WILD-TYPE   12   14
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                1                 14
D40V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      1    4
  16Q LOSS WILD-TYPE   13   13
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 13
  CLUS_2                4                 13
D40V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      0    3
  16Q LOSS WILD-TYPE    7   13
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                3                 13
D40V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      0    3
  16Q LOSS WILD-TYPE    4   16
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                3                 16
D40V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                  7
  CLUS_2                3                  8
  CLUS_3                1                 11
D40V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                2                  6
  CLUS_3                1                  6
  CLUS_4                1                  9
D40V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      3    2
  16Q LOSS WILD-TYPE   13   13
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                2                 13
D40V8, multiclass

Clustering(41) Variable = 17p loss mutation analysis
D41V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      5    2
  17P LOSS WILD-TYPE   11   13
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                2                 13
D41V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      3    4
  17P LOSS WILD-TYPE   11   13
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                 11
  CLUS_2                4                 13
D41V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      1    4
  17P LOSS WILD-TYPE    6   12
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                4                 12
D41V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      1    4
  17P LOSS WILD-TYPE    3   15
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                1                  3
  CLUS_2                4                 15
D41V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                1                  7
  CLUS_2                4                  7
  CLUS_3                2                 10
D41V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                3                  5
  CLUS_3                2                  5
  CLUS_4                1                  9
D41V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      5    2
  17P LOSS WILD-TYPE   11   13
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                2                 13
D41V8, multiclass

Clustering(42) Variable = 18p loss mutation analysis
D42V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      2    3
  18P LOSS WILD-TYPE   14   12
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                3                 12
D42V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      1    4
  18P LOSS WILD-TYPE   13   13
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                 13
  CLUS_2                4                 13
D42V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      1    4
  18P LOSS WILD-TYPE    6   12
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                4                 12
D42V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      0    5
  18P LOSS WILD-TYPE    4   14
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                5                 14
D42V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                3                  5
  CLUS_2                1                 10
  CLUS_3                1                 11
D42V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                  7
  CLUS_3                0                  7
  CLUS_4                3                  7
D42V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      2    3
  18P LOSS WILD-TYPE   14   12
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                3                 12
D42V8, multiclass

Clustering(43) Variable = 18q loss mutation analysis
D43V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      2    2
  18Q LOSS WILD-TYPE   14   13
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 13
D43V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      1    3
  18Q LOSS WILD-TYPE   13   14
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                 13
  CLUS_2                3                 14
D43V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      1    3
  18Q LOSS WILD-TYPE    6   13
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                3                 13
D43V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      1    3
  18Q LOSS WILD-TYPE    3   16
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                  3
  CLUS_2                3                 16
D43V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                  7
  CLUS_2                1                 10
  CLUS_3                2                 10
D43V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                  7
  CLUS_3                1                  6
  CLUS_4                2                  8
D43V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      2    2
  18Q LOSS WILD-TYPE   14   13
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 13
D43V8, multiclass

Clustering(44) Variable = 21q loss mutation analysis
D44V1, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      4    3
  21Q LOSS WILD-TYPE   12   12
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                3                 12
D44V2, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      3    4
  21Q LOSS WILD-TYPE   11   13
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                 11
  CLUS_2                4                 13
D44V3, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      1    5
  21Q LOSS WILD-TYPE    6   11
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                5                 11
D44V4, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      0    6
  21Q LOSS WILD-TYPE    4   13
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                0                  4
  CLUS_2                6                 13
D44V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                  5
  CLUS_2                4                  7
  CLUS_3                0                 12
D44V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                3                  5
  CLUS_3                0                  7
  CLUS_4                2                  8
D44V7, binary
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      3    4
  21Q LOSS WILD-TYPE   13   11
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                4                 11
D44V8, multiclass
                     V1                      V2                      V3 
              "CN_CNMF"      "METHLYATION_CNMF"             "RPPA_CNMF" 
                     V4                      V5                      V6 
   "RPPA_CHIERARCHICAL"          "MRNASEQ_CNMF" "MRNASEQ_CHIERARCHICAL" 
                     V7                      V8 
          "MIRSEQ_CNMF"  "MIRSEQ_CHIERARCHICAL" 
> q(save="no")
