
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_cnvs_onlysig.4.4139/CNV2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_cnvs_onlysig.4.4139/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/421266/all_lesions.conf_99.cnv.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/KIRP-TP/3536999/KIRP-TP.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=KIRP-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=KIRP-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=127, in cluster file=127, common to both=127
[1] "Reduce the number of clustering variables from 34 to 33."
[1]  33 127
[1] "Amp Peak 1(2q32.1)"
[1] 3
      AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE 
                          23                          104 
      AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE 
                          23                          104 
[1] "Amp Peak 2(3p14.1)"
[1] 3
      AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE 
                          32                           95 
      AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE 
                          32                           95 
[1] "Amp Peak 3(3q26.31)"
[1] 3
      AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE 
                           42                            85 
      AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE 
                           42                            85 
[1] "Amp Peak 4(5q35.2)"
[1] 3
      AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE 
                          19                          108 
      AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE 
                          19                          108 
[1] "Amp Peak 5(6p12.3)"
[1] 3
      AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE 
                           4                          123 
      AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE 
                           4                          123 
[1] "Amp Peak 6(7q22.1)"
[1] 3
      AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE 
                          71                           56 
      AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE 
                          71                           56 
[1] "Amp Peak 7(17q25.2)"
[1] 3
      AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE 
                           87                            40 
      AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE 
                           87                            40 
[1] "Amp Peak 8(19p13.2)"
[1] 3
      AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE 
                           14                           113 
      AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE 
                           14                           113 
[1] "Amp Peak 9(19q13.11)"
[1] 3
      AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE 
                             4                            123 
      AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE 
                             4                            123 
[1] "Del Peak  1(1p36.31)"
[1] 3
      DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE 
                            27                            100 
      DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE 
                            27                            100 
[1] "Del Peak  2(2p11.2)"
[1] 3
      DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE 
                            3                           124 
      DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE 
                            3                           124 
[1] "Del Peak  3(2q37.3)"
[1] 3
      DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE 
                            5                           122 
      DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE 
                            5                           122 
[1] "Del Peak  4(3p22.1)"
[1] 3
      DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE 
                           10                           117 
      DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE 
                           10                           117 
[1] "Del Peak  5(4q33)"
[1] 3
      DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE 
                         16                         111 
      DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE 
                         16                         111 
[1] "Del Peak  6(5p15.2)"
[1] 3
      DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE 
                            7                           120 
      DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE 
                            7                           120 
[1] "Del Peak  7(5q15)"
[1] 3
      DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE 
                         10                         117 
      DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE 
                         10                         117 
[1] "Del Peak  8(5q35.2)"
[1] 3
      DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE 
                            9                           118 
      DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE 
                            9                           118 
[1] "Del Peak  9(6p12.3)"
[1] 3
      DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE 
                           12                           115 
      DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE 
                           12                           115 
[1] "Del Peak 10(6q22.31)"
[1] 3
      DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE 
                            14                            113 
      DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE 
                            14                            113 
[1] "Del Peak 11(6q26)"
[1] 3
      DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE 
                         15                         112 
      DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE 
                         15                         112 
[1] "Del Peak 12(9p21.3)"
[1] 3
      DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE 
                           19                           108 
      DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE 
                           19                           108 
[1] "Del Peak 13(10p15.3)"
[1] 3
      DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE 
                             8                            119 
      DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE 
                             8                            119 
[1] "Del Peak 14(11q22.3)"
[1] 3
      DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE 
                            14                            113 
      DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE 
                            14                            113 
[1] "Del Peak 16(14q11.2)"
[1] 3
      DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE 
                            29                             98 
      DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE 
                            29                             98 
[1] "Del Peak 17(14q23.3)"
[1] 3
      DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE 
                            28                             99 
      DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE 
                            28                             99 
[1] "Del Peak 18(14q32.2)"
[1] 3
      DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE 
                            28                             99 
      DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE 
                            28                             99 
[1] "Del Peak 19(15q14)"
[1] 3
      DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE 
                          16                          111 
      DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE 
                          16                          111 
[1] "Del Peak 20(19p13.3)"
[1] 3
      DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE 
                            13                            114 
      DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE 
                            13                            114 
[1] "Del Peak 21(19q13.2)"
[1] 3
      DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE 
                            11                            116 
      DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE 
                            11                            116 
[1] "Del Peak 22(19q13.42)"
[1] 3
      DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE 
                             12                             115 
      DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE 
                             12                             115 
[1] "Del Peak 23(22q12.2)"
[1] 3
      DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE 
                            34                             93 
      DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE 
                            34                             93 
[1] "Del Peak 24(Xq21.31)"
[1] 3
      DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE 
                            18                            109 
      DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE 
                            18                            109 
[1] "Del Peak 25(Xq28)"
[1] 3
      DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE 
                         17                         110 
      DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE 
                         17                         110 
[1] "data2feature, selection=ALL"
[1] "CN_CNMF"                     "METHLYATION_CNMF"           
[3] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[5] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[7] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 8 rows and 127 columns.

Variable 1:'CN_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MIRSEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"                     "METHLYATION_CNMF"           
[3] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[5] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[7] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 127 columns, 0 survival variables, and 8 non-survival variables.
CN_CNMF, nv=5, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = Amp Peak 1(2q32.1)
D1V1, multiclass
D1V2, multiclass
        clus
vv       AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE
  CLUS_1                      2                           25
  CLUS_2                      9                           44
  CLUS_3                      9                           22
D1V3, multiclass
        clus
vv       AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE
  CLUS_1                      6                           21
  CLUS_2                      6                           18
  CLUS_3                      5                           20
D1V4, multiclass
        clus
vv       AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE
  CLUS_1                      4                           14
  CLUS_2                      8                           29
  CLUS_3                      5                           16
D1V5, multiclass
        clus
vv       AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE
  CLUS_1                      4                           32
  CLUS_2                      8                           38
  CLUS_3                      5                           21
  CLUS_4                      6                           13
D1V6, multiclass
        clus
vv       AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE
  CLUS_1                      7                           41
  CLUS_2                      8                           25
  CLUS_3                      2                            9
  CLUS_4                      6                           29
D1V7, multiclass
        clus
vv       AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE
  CLUS_1                      9                           28
  CLUS_2                      5                           38
  CLUS_3                      6                           25
D1V8, multiclass
        clus
vv       AMP PEAK 1(2Q32.1) CNV AMP PEAK 1(2Q32.1) WILD-TYPE
  CLUS_1                      7                           40
  CLUS_2                      6                           10
  CLUS_3                      7                           41

Clustering(2) Variable = Amp Peak 2(3p14.1)
D2V1, multiclass
D2V2, multiclass
        clus
vv       AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE
  CLUS_1                      5                           22
  CLUS_2                     18                           35
  CLUS_3                      3                           28
D2V3, multiclass
        clus
vv       AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE
  CLUS_1                     12                           15
  CLUS_2                      1                           23
  CLUS_3                      7                           18
D2V4, multiclass
        clus
vv       AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE
  CLUS_1                      1                           17
  CLUS_2                     19                           18
  CLUS_3                      0                           21
D2V5, multiclass
        clus
vv       AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE
  CLUS_1                     15                           21
  CLUS_2                      7                           39
  CLUS_3                      9                           17
  CLUS_4                      1                           18
D2V6, multiclass
        clus
vv       AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE
  CLUS_1                      6                           42
  CLUS_2                      3                           30
  CLUS_3                     10                            1
  CLUS_4                     13                           22
D2V7, multiclass
        clus
vv       AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE
  CLUS_1                     11                           26
  CLUS_2                      7                           36
  CLUS_3                      8                           23
D2V8, multiclass
        clus
vv       AMP PEAK 2(3P14.1) CNV AMP PEAK 2(3P14.1) WILD-TYPE
  CLUS_1                     17                           30
  CLUS_2                      0                           16
  CLUS_3                      9                           39

Clustering(3) Variable = Amp Peak 3(3q26.31)
D3V1, multiclass
D3V2, multiclass
        clus
vv       AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE
  CLUS_1                       6                            21
  CLUS_2                      22                            31
  CLUS_3                       8                            23
D3V3, multiclass
        clus
vv       AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE
  CLUS_1                      14                            13
  CLUS_2                       4                            20
  CLUS_3                       8                            17
D3V4, multiclass
        clus
vv       AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE
  CLUS_1                       4                            14
  CLUS_2                      20                            17
  CLUS_3                       2                            19
D3V5, multiclass
        clus
vv       AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE
  CLUS_1                      16                            20
  CLUS_2                      11                            35
  CLUS_3                      12                            14
  CLUS_4                       3                            16
D3V6, multiclass
        clus
vv       AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE
  CLUS_1                      10                            38
  CLUS_2                       8                            25
  CLUS_3                      10                             1
  CLUS_4                      14                            21
D3V7, multiclass
        clus
vv       AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE
  CLUS_1                      15                            22
  CLUS_2                      12                            31
  CLUS_3                       9                            22
D3V8, multiclass
        clus
vv       AMP PEAK 3(3Q26.31) CNV AMP PEAK 3(3Q26.31) WILD-TYPE
  CLUS_1                      21                            26
  CLUS_2                       2                            14
  CLUS_3                      13                            35

Clustering(4) Variable = Amp Peak 4(5q35.2)
D4V1, multiclass
D4V2, multiclass
        clus
vv       AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE
  CLUS_1                      5                           22
  CLUS_2                      3                           50
  CLUS_3                      8                           23
D4V3, multiclass
        clus
vv       AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE
  CLUS_1                      3                           24
  CLUS_2                      4                           20
  CLUS_3                      5                           20
D4V4, multiclass
        clus
vv       AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE
  CLUS_1                      1                           17
  CLUS_2                      4                           33
  CLUS_3                      7                           14
D4V5, multiclass
        clus
vv       AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE
  CLUS_1                      3                           33
  CLUS_2                      6                           40
  CLUS_3                      7                           19
  CLUS_4                      3                           16
D4V6, multiclass
        clus
vv       AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE
  CLUS_1                      5                           43
  CLUS_2                      9                           24
  CLUS_3                      1                           10
  CLUS_4                      4                           31
D4V7, multiclass
        clus
vv       AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE
  CLUS_1                     10                           27
  CLUS_2                      4                           39
  CLUS_3                      2                           29
D4V8, multiclass
        clus
vv       AMP PEAK 4(5Q35.2) CNV AMP PEAK 4(5Q35.2) WILD-TYPE
  CLUS_1                      7                           40
  CLUS_2                      4                           12
  CLUS_3                      5                           43

Clustering(5) Variable = Amp Peak 5(6p12.3)
D5V1, multiclass
D5V2, multiclass
        clus
vv       AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE
  CLUS_1                      0                           27
  CLUS_2                      1                           52
  CLUS_3                      3                           28
D5V3, multiclass
        clus
vv       AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE
  CLUS_1                      1                           26
  CLUS_2                      3                           21
  CLUS_3                      0                           25
D5V4, multiclass
        clus
vv       AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE
  CLUS_1                      2                           16
  CLUS_2                      1                           36
  CLUS_3                      1                           20
D5V5, multiclass
        clus
vv       AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE
  CLUS_1                      0                           36
  CLUS_2                      3                           43
  CLUS_3                      0                           26
  CLUS_4                      1                           18
D5V6, multiclass
        clus
vv       AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE
  CLUS_1                      3                           45
  CLUS_2                      1                           32
  CLUS_3                      0                           11
  CLUS_4                      0                           35
D5V7, multiclass
        clus
vv       AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE
  CLUS_1                      0                           37
  CLUS_2                      2                           41
  CLUS_3                      2                           29
D5V8, multiclass
        clus
vv       AMP PEAK 5(6P12.3) CNV AMP PEAK 5(6P12.3) WILD-TYPE
  CLUS_1                      1                           46
  CLUS_2                      0                           16
  CLUS_3                      3                           45

Clustering(6) Variable = Amp Peak 6(7q22.1)
D6V1, multiclass
D6V2, multiclass
        clus
vv       AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE
  CLUS_1                     10                           17
  CLUS_2                     40                           13
  CLUS_3                     10                           21
D6V3, multiclass
        clus
vv       AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE
  CLUS_1                     22                            5
  CLUS_2                      8                           16
  CLUS_3                     13                           12
D6V4, multiclass
        clus
vv       AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE
  CLUS_1                      8                           10
  CLUS_2                     29                            8
  CLUS_3                      6                           15
D6V5, multiclass
        clus
vv       AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE
  CLUS_1                     26                           10
  CLUS_2                     26                           20
  CLUS_3                     13                           13
  CLUS_4                      6                           13
D6V6, multiclass
        clus
vv       AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE
  CLUS_1                     24                           24
  CLUS_2                     13                           20
  CLUS_3                     10                            1
  CLUS_4                     24                           11
D6V7, multiclass
        clus
vv       AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE
  CLUS_1                     16                           21
  CLUS_2                     23                           20
  CLUS_3                     21                           10
D6V8, multiclass
        clus
vv       AMP PEAK 6(7Q22.1) CNV AMP PEAK 6(7Q22.1) WILD-TYPE
  CLUS_1                     30                           17
  CLUS_2                      4                           12
  CLUS_3                     26                           22

Clustering(7) Variable = Amp Peak 7(17q25.2)
D7V1, multiclass
D7V2, multiclass
        clus
vv       AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE
  CLUS_1                      15                            12
  CLUS_2                      41                            12
  CLUS_3                      19                            12
D7V3, multiclass
        clus
vv       AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE
  CLUS_1                      20                             7
  CLUS_2                      13                            11
  CLUS_3                      14                            11
D7V4, multiclass
        clus
vv       AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE
  CLUS_1                      10                             8
  CLUS_2                      28                             9
  CLUS_3                       9                            12
D7V5, multiclass
        clus
vv       AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE
  CLUS_1                      27                             9
  CLUS_2                      32                            14
  CLUS_3                      18                             8
  CLUS_4                      10                             9
D7V6, multiclass
        clus
vv       AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE
  CLUS_1                      32                            16
  CLUS_2                      20                            13
  CLUS_3                      10                             1
  CLUS_4                      25                            10
D7V7, multiclass
        clus
vv       AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE
  CLUS_1                      24                            13
  CLUS_2                      27                            16
  CLUS_3                      24                             7
D7V8, multiclass
        clus
vv       AMP PEAK 7(17Q25.2) CNV AMP PEAK 7(17Q25.2) WILD-TYPE
  CLUS_1                      31                            16
  CLUS_2                      11                             5
  CLUS_3                      33                            15

Clustering(8) Variable = Amp Peak 8(19p13.2)
D8V1, multiclass
D8V2, multiclass
        clus
vv       AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE
  CLUS_1                       0                            27
  CLUS_2                       7                            46
  CLUS_3                       3                            28
D8V3, multiclass
        clus
vv       AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE
  CLUS_1                       7                            20
  CLUS_2                       3                            21
  CLUS_3                       1                            24
D8V4, multiclass
        clus
vv       AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE
  CLUS_1                       3                            15
  CLUS_2                       6                            31
  CLUS_3                       2                            19
D8V5, multiclass
        clus
vv       AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE
  CLUS_1                       5                            31
  CLUS_2                       5                            41
  CLUS_3                       2                            24
  CLUS_4                       2                            17
D8V6, multiclass
        clus
vv       AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE
  CLUS_1                       4                            44
  CLUS_2                       4                            29
  CLUS_3                       0                            11
  CLUS_4                       6                            29
D8V7, multiclass
        clus
vv       AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE
  CLUS_1                       3                            34
  CLUS_2                       3                            40
  CLUS_3                       4                            27
D8V8, multiclass
        clus
vv       AMP PEAK 8(19P13.2) CNV AMP PEAK 8(19P13.2) WILD-TYPE
  CLUS_1                       5                            42
  CLUS_2                       2                            14
  CLUS_3                       3                            45

Clustering(9) Variable = Amp Peak 9(19q13.11)
D9V1, multiclass
D9V2, multiclass
        clus
vv       AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE
  CLUS_1                        0                             27
  CLUS_2                        1                             52
  CLUS_3                        3                             28
D9V3, multiclass
        clus
vv       AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE
  CLUS_1                        0                             27
  CLUS_2                        2                             22
  CLUS_3                        1                             24
D9V4, multiclass
        clus
vv       AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE
  CLUS_1                        1                             17
  CLUS_2                        0                             37
  CLUS_3                        2                             19
D9V5, multiclass
        clus
vv       AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE
  CLUS_1                        0                             36
  CLUS_2                        3                             43
  CLUS_3                        1                             25
  CLUS_4                        0                             19
D9V6, multiclass
        clus
vv       AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE
  CLUS_1                        3                             45
  CLUS_2                        1                             32
  CLUS_3                        0                             11
  CLUS_4                        0                             35
D9V7, multiclass
        clus
vv       AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE
  CLUS_1                        1                             36
  CLUS_2                        3                             40
  CLUS_3                        0                             31
D9V8, multiclass
        clus
vv       AMP PEAK 9(19Q13.11) CNV AMP PEAK 9(19Q13.11) WILD-TYPE
  CLUS_1                        0                             47
  CLUS_2                        1                             15
  CLUS_3                        3                             45

Clustering(10) Variable = Del Peak  1(1p36.31)
D10V1, multiclass
D10V2, multiclass
        clus
vv       DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE
  CLUS_1                        4                             23
  CLUS_2                        7                             46
  CLUS_3                       13                             18
D10V3, multiclass
        clus
vv       DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE
  CLUS_1                        4                             23
  CLUS_2                        9                             15
  CLUS_3                        3                             22
D10V4, multiclass
        clus
vv       DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE
  CLUS_1                        6                             12
  CLUS_2                        4                             33
  CLUS_3                        6                             15
D10V5, multiclass
        clus
vv       DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE
  CLUS_1                        9                             27
  CLUS_2                        8                             38
  CLUS_3                        3                             23
  CLUS_4                        7                             12
D10V6, multiclass
        clus
vv       DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE
  CLUS_1                        9                             39
  CLUS_2                        9                             24
  CLUS_3                        0                             11
  CLUS_4                        9                             26
D10V7, multiclass
        clus
vv       DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE
  CLUS_1                       11                             26
  CLUS_2                        6                             37
  CLUS_3                        7                             24
D10V8, multiclass
        clus
vv       DEL PEAK  1(1P36.31) CNV DEL PEAK  1(1P36.31) WILD-TYPE
  CLUS_1                        8                             39
  CLUS_2                        7                              9
  CLUS_3                        9                             39

Clustering(11) Variable = Del Peak  2(2p11.2)
D11V1, multiclass
D11V2, multiclass
        clus
vv       DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE
  CLUS_1                       0                            27
  CLUS_2                       2                            51
  CLUS_3                       1                            30
D11V3, multiclass
[1] "Remove cluster labels:"  "DEL PEAK  2(2P11.2) CNV"
clus
      DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE 
                            2                            74 
                   TCGA-A4-7997                    TCGA-AL-3466 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-AL-3467                    TCGA-AL-3468 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-AL-3471                    TCGA-AL-3472 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-AL-3473                    TCGA-B1-5398 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B3-3925                    TCGA-B3-3926 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B3-4103                    TCGA-B3-4104 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-4113                    TCGA-B9-4114 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-4115                    TCGA-B9-4116 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-4117                    TCGA-B9-4617 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-5156                    TCGA-BQ-5876 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5877                    TCGA-BQ-5878 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5879                    TCGA-BQ-5880 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5881                    TCGA-BQ-5882 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5883                    TCGA-BQ-5884 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5886                    TCGA-BQ-5887 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5888                    TCGA-BQ-5889 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5890                    TCGA-BQ-5891 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5892                    TCGA-BQ-5893 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5894                    TCGA-BQ-7044 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7045                    TCGA-BQ-7046 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7048                    TCGA-BQ-7049 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7050                    TCGA-BQ-7051 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7053                    TCGA-BQ-7056 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7058                    TCGA-BQ-7059 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7060                    TCGA-BQ-7061 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7062                    TCGA-DW-5560 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-DW-5561                    TCGA-DZ-6131 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-DZ-6132                    TCGA-DZ-6133 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-DZ-6134                    TCGA-DZ-6135 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-EV-5901                    TCGA-EV-5902 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-EV-5903                    TCGA-G7-6789 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-6790                    TCGA-G7-6793 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-6795                    TCGA-G7-6796 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-6797                    TCGA-G7-7501 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-7502                    TCGA-GL-6846 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-GL-7966                    TCGA-HE-7128 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-HE-7129                    TCGA-HE-7130 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
D11V4, multiclass
[1] "Remove cluster labels:"  "DEL PEAK  2(2P11.2) CNV"
clus
      DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE 
                            2                            74 
                   TCGA-A4-7997                    TCGA-AL-3466 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-AL-3467                    TCGA-AL-3468 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-AL-3471                    TCGA-AL-3472 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-AL-3473                    TCGA-B1-5398 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B3-3925                    TCGA-B3-3926 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B3-4103                    TCGA-B3-4104 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-4113                    TCGA-B9-4114 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-4115                    TCGA-B9-4116 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-4117                    TCGA-B9-4617 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-B9-5156                    TCGA-BQ-5876 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5877                    TCGA-BQ-5878 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5879                    TCGA-BQ-5880 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5881                    TCGA-BQ-5882 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5883                    TCGA-BQ-5884 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5886                    TCGA-BQ-5887 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5888                    TCGA-BQ-5889 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5890                    TCGA-BQ-5891 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5892                    TCGA-BQ-5893 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-5894                    TCGA-BQ-7044 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7045                    TCGA-BQ-7046 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7048                    TCGA-BQ-7049 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7050                    TCGA-BQ-7051 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7053                    TCGA-BQ-7056 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7058                    TCGA-BQ-7059 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7060                    TCGA-BQ-7061 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-BQ-7062                    TCGA-DW-5560 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-DW-5561                    TCGA-DZ-6131 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-DZ-6132                    TCGA-DZ-6133 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-DZ-6134                    TCGA-DZ-6135 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-EV-5901                    TCGA-EV-5902 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-EV-5903                    TCGA-G7-6789 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-6790                    TCGA-G7-6793 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-6795                    TCGA-G7-6796 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-6797                    TCGA-G7-7501 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-G7-7502                    TCGA-GL-6846 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-GL-7966                    TCGA-HE-7128 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
                   TCGA-HE-7129                    TCGA-HE-7130 
"DEL PEAK  2(2P11.2) WILD-TYPE" "DEL PEAK  2(2P11.2) WILD-TYPE" 
D11V5, multiclass
        clus
vv       DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE
  CLUS_1                       0                            36
  CLUS_2                       0                            46
  CLUS_3                       1                            25
  CLUS_4                       2                            17
D11V6, multiclass
        clus
vv       DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE
  CLUS_1                       0                            48
  CLUS_2                       3                            30
  CLUS_3                       0                            11
  CLUS_4                       0                            35
D11V7, multiclass
        clus
vv       DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE
  CLUS_1                       3                            34
  CLUS_2                       0                            43
  CLUS_3                       0                            31
D11V8, multiclass
        clus
vv       DEL PEAK  2(2P11.2) CNV DEL PEAK  2(2P11.2) WILD-TYPE
  CLUS_1                       1                            46
  CLUS_2                       2                            14
  CLUS_3                       0                            48

Clustering(12) Variable = Del Peak  3(2q37.3)
D12V1, multiclass
D12V2, multiclass
        clus
vv       DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE
  CLUS_1                       1                            26
  CLUS_2                       0                            53
  CLUS_3                       2                            29
D12V3, multiclass
        clus
vv       DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE
  CLUS_1                       1                            26
  CLUS_2                       2                            22
  CLUS_3                       1                            24
D12V4, multiclass
        clus
vv       DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE
  CLUS_1                       2                            16
  CLUS_2                       1                            36
  CLUS_3                       1                            20
D12V5, multiclass
        clus
vv       DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE
  CLUS_1                       1                            35
  CLUS_2                       1                            45
  CLUS_3                       2                            24
  CLUS_4                       1                            18
D12V6, multiclass
        clus
vv       DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE
  CLUS_1                       2                            46
  CLUS_2                       2                            31
  CLUS_3                       0                            11
  CLUS_4                       1                            34
D12V7, multiclass
        clus
vv       DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE
  CLUS_1                       2                            35
  CLUS_2                       0                            43
  CLUS_3                       1                            30
D12V8, multiclass
        clus
vv       DEL PEAK  3(2Q37.3) CNV DEL PEAK  3(2Q37.3) WILD-TYPE
  CLUS_1                       0                            47
  CLUS_2                       2                            14
  CLUS_3                       1                            47

Clustering(13) Variable = Del Peak  4(3p22.1)
D13V1, multiclass
D13V2, multiclass
        clus
vv       DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE
  CLUS_1                       1                            26
  CLUS_2                       0                            53
  CLUS_3                       8                            23
D13V3, multiclass
        clus
vv       DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE
  CLUS_1                       0                            27
  CLUS_2                       5                            19
  CLUS_3                       2                            23
D13V4, multiclass
        clus
vv       DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE
  CLUS_1                       2                            16
  CLUS_2                       0                            37
  CLUS_3                       5                            16
D13V5, multiclass
        clus
vv       DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE
  CLUS_1                       0                            36
  CLUS_2                       3                            43
  CLUS_3                       2                            24
  CLUS_4                       5                            14
D13V6, multiclass
        clus
vv       DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE
  CLUS_1                       3                            45
  CLUS_2                       7                            26
  CLUS_3                       0                            11
  CLUS_4                       0                            35
D13V7, multiclass
        clus
vv       DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE
  CLUS_1                       6                            31
  CLUS_2                       2                            41
  CLUS_3                       1                            30
D13V8, multiclass
        clus
vv       DEL PEAK  4(3P22.1) CNV DEL PEAK  4(3P22.1) WILD-TYPE
  CLUS_1                       0                            47
  CLUS_2                       6                            10
  CLUS_3                       3                            45

Clustering(14) Variable = Del Peak  5(4q33)
D14V1, multiclass
D14V2, multiclass
        clus
vv       DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE
  CLUS_1                     2                          25
  CLUS_2                     1                          52
  CLUS_3                    10                          21
D14V3, multiclass
        clus
vv       DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE
  CLUS_1                     1                          26
  CLUS_2                     8                          16
  CLUS_3                     1                          24
D14V4, multiclass
        clus
vv       DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE
  CLUS_1                     4                          14
  CLUS_2                     1                          36
  CLUS_3                     5                          16
D14V5, multiclass
        clus
vv       DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE
  CLUS_1                     2                          34
  CLUS_2                     9                          37
  CLUS_3                     2                          24
  CLUS_4                     3                          16
D14V6, multiclass
        clus
vv       DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE
  CLUS_1                     8                          40
  CLUS_2                     5                          28
  CLUS_3                     1                          10
  CLUS_4                     2                          33
D14V7, multiclass
        clus
vv       DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE
  CLUS_1                     6                          31
  CLUS_2                     5                          38
  CLUS_3                     2                          29
D14V8, multiclass
        clus
vv       DEL PEAK  5(4Q33) CNV DEL PEAK  5(4Q33) WILD-TYPE
  CLUS_1                     2                          45
  CLUS_2                     4                          12
  CLUS_3                     7                          41

Clustering(15) Variable = Del Peak  6(5p15.2)
D15V1, multiclass
D15V2, multiclass
        clus
vv       DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE
  CLUS_1                       1                            26
  CLUS_2                       1                            52
  CLUS_3                       5                            26
D15V3, multiclass
        clus
vv       DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE
  CLUS_1                       1                            26
  CLUS_2                       4                            20
  CLUS_3                       0                            25
D15V4, multiclass
        clus
vv       DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE
  CLUS_1                       4                            14
  CLUS_2                       1                            36
  CLUS_3                       0                            21
D15V5, multiclass
        clus
vv       DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE
  CLUS_1                       2                            34
  CLUS_2                       5                            41
  CLUS_3                       0                            26
  CLUS_4                       0                            19
D15V6, multiclass
        clus
vv       DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE
  CLUS_1                       5                            43
  CLUS_2                       0                            33
  CLUS_3                       0                            11
  CLUS_4                       2                            33
D15V7, multiclass
        clus
vv       DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE
  CLUS_1                       1                            36
  CLUS_2                       5                            38
  CLUS_3                       1                            30
D15V8, multiclass
        clus
vv       DEL PEAK  6(5P15.2) CNV DEL PEAK  6(5P15.2) WILD-TYPE
  CLUS_1                       2                            45
  CLUS_2                       0                            16
  CLUS_3                       5                            43

Clustering(16) Variable = Del Peak  7(5q15)
D16V1, multiclass
D16V2, multiclass
        clus
vv       DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE
  CLUS_1                     2                          25
  CLUS_2                     2                          51
  CLUS_3                     6                          25
D16V3, multiclass
        clus
vv       DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE
  CLUS_1                     1                          26
  CLUS_2                     5                          19
  CLUS_3                     0                          25
D16V4, multiclass
        clus
vv       DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE
  CLUS_1                     4                          14
  CLUS_2                     1                          36
  CLUS_3                     1                          20
D16V5, multiclass
        clus
vv       DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE
  CLUS_1                     3                          33
  CLUS_2                     5                          41
  CLUS_3                     1                          25
  CLUS_4                     1                          18
D16V6, multiclass
        clus
vv       DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE
  CLUS_1                     7                          41
  CLUS_2                     2                          31
  CLUS_3                     0                          11
  CLUS_4                     1                          34
D16V7, multiclass
        clus
vv       DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE
  CLUS_1                     3                          34
  CLUS_2                     5                          38
  CLUS_3                     2                          29
D16V8, multiclass
        clus
vv       DEL PEAK  7(5Q15) CNV DEL PEAK  7(5Q15) WILD-TYPE
  CLUS_1                     3                          44
  CLUS_2                     1                          15
  CLUS_3                     6                          42

Clustering(17) Variable = Del Peak  8(5q35.2)
D17V1, multiclass
D17V2, multiclass
        clus
vv       DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE
  CLUS_1                       2                            25
  CLUS_2                       0                            53
  CLUS_3                       6                            25
D17V3, multiclass
        clus
vv       DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE
  CLUS_1                       0                            27
  CLUS_2                       6                            18
  CLUS_3                       0                            25
D17V4, multiclass
        clus
vv       DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE
  CLUS_1                       5                            13
  CLUS_2                       0                            37
  CLUS_3                       1                            20
D17V5, multiclass
        clus
vv       DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE
  CLUS_1                       2                            34
  CLUS_2                       6                            40
  CLUS_3                       0                            26
  CLUS_4                       1                            18
D17V6, multiclass
        clus
vv       DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE
  CLUS_1                       7                            41
  CLUS_2                       1                            32
  CLUS_3                       0                            11
  CLUS_4                       1                            34
D17V7, multiclass
        clus
vv       DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE
  CLUS_1                       2                            35
  CLUS_2                       5                            38
  CLUS_3                       1                            30
D17V8, multiclass
        clus
vv       DEL PEAK  8(5Q35.2) CNV DEL PEAK  8(5Q35.2) WILD-TYPE
  CLUS_1                       1                            46
  CLUS_2                       1                            15
  CLUS_3                       6                            42

Clustering(18) Variable = Del Peak  9(6p12.3)
D18V1, multiclass
D18V2, multiclass
        clus
vv       DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE
  CLUS_1                       1                            26
  CLUS_2                       3                            50
  CLUS_3                       7                            24
D18V3, multiclass
        clus
vv       DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE
  CLUS_1                       4                            23
  CLUS_2                       4                            20
  CLUS_3                       2                            23
D18V4, multiclass
        clus
vv       DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE
  CLUS_1                       2                            16
  CLUS_2                       4                            33
  CLUS_3                       4                            17
D18V5, multiclass
        clus
vv       DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE
  CLUS_1                       5                            31
  CLUS_2                       4                            42
  CLUS_3                       1                            25
  CLUS_4                       2                            17
D18V6, multiclass
        clus
vv       DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE
  CLUS_1                       5                            43
  CLUS_2                       3                            30
  CLUS_3                       0                            11
  CLUS_4                       4                            31
D18V7, multiclass
        clus
vv       DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE
  CLUS_1                       4                            33
  CLUS_2                       4                            39
  CLUS_3                       3                            28
D18V8, multiclass
        clus
vv       DEL PEAK  9(6P12.3) CNV DEL PEAK  9(6P12.3) WILD-TYPE
  CLUS_1                       4                            43
  CLUS_2                       2                            14
  CLUS_3                       5                            43

Clustering(19) Variable = Del Peak 10(6q22.31)
D19V1, multiclass
D19V2, multiclass
        clus
vv       DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE
  CLUS_1                        4                             23
  CLUS_2                        2                             51
  CLUS_3                        7                             24
D19V3, multiclass
        clus
vv       DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE
  CLUS_1                        3                             24
  CLUS_2                        6                             18
  CLUS_3                        1                             24
D19V4, multiclass
        clus
vv       DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE
  CLUS_1                        5                             13
  CLUS_2                        3                             34
  CLUS_3                        2                             19
D19V5, multiclass
        clus
vv       DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE
  CLUS_1                        5                             31
  CLUS_2                        6                             40
  CLUS_3                        0                             26
  CLUS_4                        3                             16
D19V6, multiclass
        clus
vv       DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE
  CLUS_1                        8                             40
  CLUS_2                        3                             30
  CLUS_3                        0                             11
  CLUS_4                        3                             32
D19V7, multiclass
        clus
vv       DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE
  CLUS_1                        5                             32
  CLUS_2                        5                             38
  CLUS_3                        3                             28
D19V8, multiclass
        clus
vv       DEL PEAK 10(6Q22.31) CNV DEL PEAK 10(6Q22.31) WILD-TYPE
  CLUS_1                        2                             45
  CLUS_2                        3                             13
  CLUS_3                        8                             40

Clustering(20) Variable = Del Peak 11(6q26)
D20V1, multiclass
D20V2, multiclass
        clus
vv       DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE
  CLUS_1                     3                          24
  CLUS_2                     2                          51
  CLUS_3                     9                          22
D20V3, multiclass
        clus
vv       DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE
  CLUS_1                     3                          24
  CLUS_2                     5                          19
  CLUS_3                     2                          23
D20V4, multiclass
        clus
vv       DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE
  CLUS_1                     4                          14
  CLUS_2                     3                          34
  CLUS_3                     3                          18
D20V5, multiclass
        clus
vv       DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE
  CLUS_1                     5                          31
  CLUS_2                     6                          40
  CLUS_3                     1                          25
  CLUS_4                     3                          16
D20V6, multiclass
        clus
vv       DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE
  CLUS_1                     8                          40
  CLUS_2                     4                          29
  CLUS_3                     0                          11
  CLUS_4                     3                          32
D20V7, multiclass
        clus
vv       DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE
  CLUS_1                     6                          31
  CLUS_2                     4                          39
  CLUS_3                     4                          27
D20V8, multiclass
        clus
vv       DEL PEAK 11(6Q26) CNV DEL PEAK 11(6Q26) WILD-TYPE
  CLUS_1                     3                          44
  CLUS_2                     3                          13
  CLUS_3                     8                          40

Clustering(21) Variable = Del Peak 12(9p21.3)
D21V1, multiclass
D21V2, multiclass
        clus
vv       DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE
  CLUS_1                       6                            21
  CLUS_2                       0                            53
  CLUS_3                      10                            21
D21V3, multiclass
        clus
vv       DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE
  CLUS_1                       1                            26
  CLUS_2                      12                            12
  CLUS_3                       2                            23
D21V4, multiclass
        clus
vv       DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE
  CLUS_1                       8                            10
  CLUS_2                       2                            35
  CLUS_3                       5                            16
D21V5, multiclass
        clus
vv       DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE
  CLUS_1                       5                            31
  CLUS_2                      11                            35
  CLUS_3                       0                            26
  CLUS_4                       3                            16
D21V6, multiclass
        clus
vv       DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE
  CLUS_1                      12                            36
  CLUS_2                       4                            29
  CLUS_3                       0                            11
  CLUS_4                       3                            32
D21V7, multiclass
        clus
vv       DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE
  CLUS_1                       4                            33
  CLUS_2                       9                            34
  CLUS_3                       3                            28
D21V8, multiclass
        clus
vv       DEL PEAK 12(9P21.3) CNV DEL PEAK 12(9P21.3) WILD-TYPE
  CLUS_1                       1                            46
  CLUS_2                       3                            13
  CLUS_3                      12                            36

Clustering(22) Variable = Del Peak 13(10p15.3)
D22V1, multiclass
D22V2, multiclass
        clus
vv       DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE
  CLUS_1                        0                             27
  CLUS_2                        2                             51
  CLUS_3                        6                             25
D22V3, multiclass
        clus
vv       DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE
  CLUS_1                        1                             26
  CLUS_2                        3                             21
  CLUS_3                        1                             24
D22V4, multiclass
        clus
vv       DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE
  CLUS_1                        1                             17
  CLUS_2                        1                             36
  CLUS_3                        3                             18
D22V5, multiclass
        clus
vv       DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE
  CLUS_1                        0                             36
  CLUS_2                        4                             42
  CLUS_3                        0                             26
  CLUS_4                        4                             15
D22V6, multiclass
        clus
vv       DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE
  CLUS_1                        3                             45
  CLUS_2                        3                             30
  CLUS_3                        1                             10
  CLUS_4                        1                             34
D22V7, multiclass
        clus
vv       DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE
  CLUS_1                        4                             33
  CLUS_2                        3                             40
  CLUS_3                        1                             30
D22V8, multiclass
        clus
vv       DEL PEAK 13(10P15.3) CNV DEL PEAK 13(10P15.3) WILD-TYPE
  CLUS_1                        2                             45
  CLUS_2                        3                             13
  CLUS_3                        3                             45

Clustering(23) Variable = Del Peak 14(11q22.3)
D23V1, multiclass
D23V2, multiclass
        clus
vv       DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE
  CLUS_1                        2                             25
  CLUS_2                        2                             51
  CLUS_3                        9                             22
D23V3, multiclass
        clus
vv       DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE
  CLUS_1                        1                             26
  CLUS_2                        6                             18
  CLUS_3                        3                             22
D23V4, multiclass
        clus
vv       DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE
  CLUS_1                        5                             13
  CLUS_2                        1                             36
  CLUS_3                        4                             17
D23V5, multiclass
        clus
vv       DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE
  CLUS_1                        1                             35
  CLUS_2                        7                             39
  CLUS_3                        2                             24
  CLUS_4                        4                             15
D23V6, multiclass
        clus
vv       DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE
  CLUS_1                        7                             41
  CLUS_2                        4                             29
  CLUS_3                        1                             10
  CLUS_4                        2                             33
D23V7, multiclass
        clus
vv       DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE
  CLUS_1                        6                             31
  CLUS_2                        5                             38
  CLUS_3                        2                             29
D23V8, multiclass
        clus
vv       DEL PEAK 14(11Q22.3) CNV DEL PEAK 14(11Q22.3) WILD-TYPE
  CLUS_1                        4                             43
  CLUS_2                        3                             13
  CLUS_3                        6                             42

Clustering(24) Variable = Del Peak 16(14q11.2)
D24V1, multiclass
D24V2, multiclass
        clus
vv       DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE
  CLUS_1                        7                             20
  CLUS_2                        8                             45
  CLUS_3                        9                             22
D24V3, multiclass
        clus
vv       DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE
  CLUS_1                        5                             22
  CLUS_2                       10                             14
  CLUS_3                        4                             21
D24V4, multiclass
        clus
vv       DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE
  CLUS_1                        7                             11
  CLUS_2                        6                             31
  CLUS_3                        6                             15
D24V5, multiclass
        clus
vv       DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE
  CLUS_1                        9                             27
  CLUS_2                       12                             34
  CLUS_3                        5                             21
  CLUS_4                        3                             16
D24V6, multiclass
        clus
vv       DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE
  CLUS_1                       12                             36
  CLUS_2                        8                             25
  CLUS_3                        1                             10
  CLUS_4                        8                             27
D24V7, multiclass
        clus
vv       DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE
  CLUS_1                        8                             29
  CLUS_2                        9                             34
  CLUS_3                        7                             24
D24V8, multiclass
        clus
vv       DEL PEAK 16(14Q11.2) CNV DEL PEAK 16(14Q11.2) WILD-TYPE
  CLUS_1                        7                             40
  CLUS_2                        5                             11
  CLUS_3                       12                             36

Clustering(25) Variable = Del Peak 17(14q23.3)
D25V1, multiclass
D25V2, multiclass
        clus
vv       DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE
  CLUS_1                        8                             19
  CLUS_2                        7                             46
  CLUS_3                        9                             22
D25V3, multiclass
        clus
vv       DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE
  CLUS_1                        3                             24
  CLUS_2                       10                             14
  CLUS_3                        5                             20
D25V4, multiclass
        clus
vv       DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE
  CLUS_1                        7                             11
  CLUS_2                        4                             33
  CLUS_3                        7                             14
D25V5, multiclass
        clus
vv       DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE
  CLUS_1                        8                             28
  CLUS_2                       12                             34
  CLUS_3                        5                             21
  CLUS_4                        3                             16
D25V6, multiclass
        clus
vv       DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE
  CLUS_1                       12                             36
  CLUS_2                        8                             25
  CLUS_3                        1                             10
  CLUS_4                        7                             28
D25V7, multiclass
        clus
vv       DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE
  CLUS_1                        8                             29
  CLUS_2                       10                             33
  CLUS_3                        6                             25
D25V8, multiclass
        clus
vv       DEL PEAK 17(14Q23.3) CNV DEL PEAK 17(14Q23.3) WILD-TYPE
  CLUS_1                        7                             40
  CLUS_2                        5                             11
  CLUS_3                       12                             36

Clustering(26) Variable = Del Peak 18(14q32.2)
D26V1, multiclass
D26V2, multiclass
        clus
vv       DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE
  CLUS_1                        8                             19
  CLUS_2                        8                             45
  CLUS_3                        8                             23
D26V3, multiclass
        clus
vv       DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE
  CLUS_1                        3                             24
  CLUS_2                        9                             15
  CLUS_3                        5                             20
D26V4, multiclass
        clus
vv       DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE
  CLUS_1                        6                             12
  CLUS_2                        4                             33
  CLUS_3                        7                             14
D26V5, multiclass
        clus
vv       DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE
  CLUS_1                        8                             28
  CLUS_2                       12                             34
  CLUS_3                        5                             21
  CLUS_4                        3                             16
D26V6, multiclass
        clus
vv       DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE
  CLUS_1                       12                             36
  CLUS_2                        8                             25
  CLUS_3                        1                             10
  CLUS_4                        7                             28
D26V7, multiclass
        clus
vv       DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE
  CLUS_1                        8                             29
  CLUS_2                       10                             33
  CLUS_3                        6                             25
D26V8, multiclass
        clus
vv       DEL PEAK 18(14Q32.2) CNV DEL PEAK 18(14Q32.2) WILD-TYPE
  CLUS_1                        8                             39
  CLUS_2                        5                             11
  CLUS_3                       11                             37

Clustering(27) Variable = Del Peak 19(15q14)
D27V1, multiclass
D27V2, multiclass
        clus
vv       DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE
  CLUS_1                      4                           23
  CLUS_2                      2                           51
  CLUS_3                      8                           23
D27V3, multiclass
        clus
vv       DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE
  CLUS_1                      2                           25
  CLUS_2                      7                           17
  CLUS_3                      3                           22
D27V4, multiclass
        clus
vv       DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE
  CLUS_1                      5                           13
  CLUS_2                      5                           32
  CLUS_3                      2                           19
D27V5, multiclass
        clus
vv       DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE
  CLUS_1                      4                           32
  CLUS_2                     10                           36
  CLUS_3                      1                           25
  CLUS_4                      1                           18
D27V6, multiclass
        clus
vv       DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE
  CLUS_1                      9                           39
  CLUS_2                      3                           30
  CLUS_3                      1                           10
  CLUS_4                      3                           32
D27V7, multiclass
        clus
vv       DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE
  CLUS_1                      3                           34
  CLUS_2                      8                           35
  CLUS_3                      3                           28
D27V8, multiclass
        clus
vv       DEL PEAK 19(15Q14) CNV DEL PEAK 19(15Q14) WILD-TYPE
  CLUS_1                      3                           44
  CLUS_2                      1                           15
  CLUS_3                     10                           38

Clustering(28) Variable = Del Peak 20(19p13.3)
D28V1, multiclass
D28V2, multiclass
        clus
vv       DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE
  CLUS_1                        2                             25
  CLUS_2                        4                             49
  CLUS_3                        6                             25
D28V3, multiclass
        clus
vv       DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE
  CLUS_1                        1                             26
  CLUS_2                        3                             21
  CLUS_3                        2                             23
D28V4, multiclass
        clus
vv       DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE
  CLUS_1                        1                             17
  CLUS_2                        1                             36
  CLUS_3                        4                             17
D28V5, multiclass
        clus
vv       DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE
  CLUS_1                        3                             33
  CLUS_2                        5                             41
  CLUS_3                        3                             23
  CLUS_4                        2                             17
D28V6, multiclass
        clus
vv       DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE
  CLUS_1                        4                             44
  CLUS_2                        5                             28
  CLUS_3                        1                             10
  CLUS_4                        3                             32
D28V7, multiclass
        clus
vv       DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE
  CLUS_1                        6                             31
  CLUS_2                        2                             41
  CLUS_3                        4                             27
D28V8, multiclass
        clus
vv       DEL PEAK 20(19P13.3) CNV DEL PEAK 20(19P13.3) WILD-TYPE
  CLUS_1                        6                             41
  CLUS_2                        2                             14
  CLUS_3                        4                             44

Clustering(29) Variable = Del Peak 21(19q13.2)
D29V1, multiclass
D29V2, multiclass
        clus
vv       DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE
  CLUS_1                        1                             26
  CLUS_2                        4                             49
  CLUS_3                        6                             25
D29V3, multiclass
        clus
vv       DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE
  CLUS_1                        1                             26
  CLUS_2                        2                             22
  CLUS_3                        2                             23
D29V4, multiclass
        clus
vv       DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE
  CLUS_1                        0                             18
  CLUS_2                        1                             36
  CLUS_3                        4                             17
D29V5, multiclass
        clus
vv       DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE
  CLUS_1                        1                             35
  CLUS_2                        4                             42
  CLUS_3                        2                             24
  CLUS_4                        4                             15
D29V6, multiclass
        clus
vv       DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE
  CLUS_1                        4                             44
  CLUS_2                        4                             29
  CLUS_3                        0                             11
  CLUS_4                        3                             32
D29V7, multiclass
        clus
vv       DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE
  CLUS_1                        6                             31
  CLUS_2                        3                             40
  CLUS_3                        2                             29
D29V8, multiclass
        clus
vv       DEL PEAK 21(19Q13.2) CNV DEL PEAK 21(19Q13.2) WILD-TYPE
  CLUS_1                        4                             43
  CLUS_2                        3                             13
  CLUS_3                        4                             44

Clustering(30) Variable = Del Peak 22(19q13.42)
D30V1, multiclass
D30V2, multiclass
        clus
vv       DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE
  CLUS_1                         1                              26
  CLUS_2                         6                              47
  CLUS_3                         5                              26
D30V3, multiclass
        clus
vv       DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE
  CLUS_1                         1                              26
  CLUS_2                         2                              22
  CLUS_3                         2                              23
D30V4, multiclass
        clus
vv       DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE
  CLUS_1                         0                              18
  CLUS_2                         2                              35
  CLUS_3                         3                              18
D30V5, multiclass
        clus
vv       DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE
  CLUS_1                         2                              34
  CLUS_2                         5                              41
  CLUS_3                         3                              23
  CLUS_4                         2                              17
D30V6, multiclass
        clus
vv       DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE
  CLUS_1                         4                              44
  CLUS_2                         4                              29
  CLUS_3                         1                              10
  CLUS_4                         3                              32
D30V7, multiclass
        clus
vv       DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE
  CLUS_1                         5                              32
  CLUS_2                         4                              39
  CLUS_3                         3                              28
D30V8, multiclass
        clus
vv       DEL PEAK 22(19Q13.42) CNV DEL PEAK 22(19Q13.42) WILD-TYPE
  CLUS_1                         5                              42
  CLUS_2                         3                              13
  CLUS_3                         4                              44

Clustering(31) Variable = Del Peak 23(22q12.2)
D31V1, multiclass
D31V2, multiclass
        clus
vv       DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE
  CLUS_1                        5                             22
  CLUS_2                        9                             44
  CLUS_3                       17                             14
D31V3, multiclass
        clus
vv       DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE
  CLUS_1                        6                             21
  CLUS_2                        9                             15
  CLUS_3                        8                             17
D31V4, multiclass
        clus
vv       DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE
  CLUS_1                        5                             13
  CLUS_2                        7                             30
  CLUS_3                       11                             10
D31V5, multiclass
        clus
vv       DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE
  CLUS_1                        8                             28
  CLUS_2                       10                             36
  CLUS_3                        5                             21
  CLUS_4                       11                              8
D31V6, multiclass
        clus
vv       DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE
  CLUS_1                       11                             37
  CLUS_2                       14                             19
  CLUS_3                        0                             11
  CLUS_4                        9                             26
D31V7, multiclass
        clus
vv       DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE
  CLUS_1                       15                             22
  CLUS_2                        9                             34
  CLUS_3                        7                             24
D31V8, multiclass
        clus
vv       DEL PEAK 23(22Q12.2) CNV DEL PEAK 23(22Q12.2) WILD-TYPE
  CLUS_1                       10                             37
  CLUS_2                       10                              6
  CLUS_3                       11                             37

Clustering(32) Variable = Del Peak 24(Xq21.31)
D32V1, multiclass
D32V2, multiclass
        clus
vv       DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE
  CLUS_1                        3                             24
  CLUS_2                        3                             50
  CLUS_3                       10                             21
D32V3, multiclass
        clus
vv       DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE
  CLUS_1                        2                             25
  CLUS_2                        9                             15
  CLUS_3                        1                             24
D32V4, multiclass
        clus
vv       DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE
  CLUS_1                        5                             13
  CLUS_2                        2                             35
  CLUS_3                        5                             16
D32V5, multiclass
        clus
vv       DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE
  CLUS_1                        4                             32
  CLUS_2                        9                             37
  CLUS_3                        1                             25
  CLUS_4                        4                             15
D32V6, multiclass
        clus
vv       DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE
  CLUS_1                        8                             40
  CLUS_2                        5                             28
  CLUS_3                        1                             10
  CLUS_4                        4                             31
D32V7, multiclass
        clus
vv       DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE
  CLUS_1                        6                             31
  CLUS_2                        8                             35
  CLUS_3                        2                             29
D32V8, multiclass
        clus
vv       DEL PEAK 24(XQ21.31) CNV DEL PEAK 24(XQ21.31) WILD-TYPE
  CLUS_1                        4                             43
  CLUS_2                        4                             12
  CLUS_3                        8                             40

Clustering(33) Variable = Del Peak 25(Xq28)
D33V1, multiclass
D33V2, multiclass
        clus
vv       DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE
  CLUS_1                     3                          24
  CLUS_2                     4                          49
  CLUS_3                     8                          23
D33V3, multiclass
        clus
vv       DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE
  CLUS_1                     3                          24
  CLUS_2                     7                          17
  CLUS_3                     1                          24
D33V4, multiclass
        clus
vv       DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE
  CLUS_1                     4                          14
  CLUS_2                     3                          34
  CLUS_3                     4                          17
D33V5, multiclass
        clus
vv       DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE
  CLUS_1                     5                          31
  CLUS_2                     9                          37
  CLUS_3                     1                          25
  CLUS_4                     2                          17
D33V6, multiclass
        clus
vv       DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE
  CLUS_1                     8                          40
  CLUS_2                     3                          30
  CLUS_3                     1                          10
  CLUS_4                     5                          30
D33V7, multiclass
        clus
vv       DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE
  CLUS_1                     5                          32
  CLUS_2                     7                          36
  CLUS_3                     3                          28
D33V8, multiclass
        clus
vv       DEL PEAK 25(XQ28) CNV DEL PEAK 25(XQ28) WILD-TYPE
  CLUS_1                     5                          42
  CLUS_2                     2                          14
  CLUS_3                     8                          40
                           V1                            V2 
                    "CN_CNMF"            "METHLYATION_CNMF" 
                           V3                            V4 
               "MRNASEQ_CNMF"       "MRNASEQ_CHIERARCHICAL" 
                           V5                            V6 
                "MIRSEQ_CNMF"        "MIRSEQ_CHIERARCHICAL" 
                           V7                            V8 
         "MIRSEQ_MATURE_CNMF" "MIRSEQ_MATURE_CHIERARCHICAL" 
> q(save="no")
