
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_mutation_onlysig.3.4048/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_mutation_onlysig.3.4048/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/423657/LUSC-TP.mutsig.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/LUSC-TP/3537070/LUSC-TP.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ONLYSIG", "-oT=LUSC-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=LUSC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=418, in cluster file=177, common to both=177
[1]  17 177
[1] "CDKN2A MUTATION ANALYSIS"
[1] 3
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              26              151 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              26              151 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           141             36 
  TP53 MUTATED TP53 WILD-TYPE 
           141             36 
[1] "NFE2L2 MUTATION ANALYSIS"
[1] 3
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              27              150 
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              27              150 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              27              150 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              27              150 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            14            163 
  PTEN MUTATED PTEN WILD-TYPE 
            14            163 
[1] "KEAP1 MUTATION ANALYSIS"
[1] 3
  KEAP1 MUTATED KEAP1 WILD-TYPE 
             22             155 
  KEAP1 MUTATED KEAP1 WILD-TYPE 
             22             155 
[1] "CSMD3 MUTATION ANALYSIS"
[1] 3
  CSMD3 MUTATED CSMD3 WILD-TYPE 
             81              96 
  CSMD3 MUTATED CSMD3 WILD-TYPE 
             81              96 
[1] "MLL2 MUTATION ANALYSIS"
[1] 3
  MLL2 MUTATED MLL2 WILD-TYPE 
            35            142 
  MLL2 MUTATED MLL2 WILD-TYPE 
            35            142 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             11             166 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             11             166 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
           12           165 
  RB1 MUTATED RB1 WILD-TYPE 
           12           165 
[1] "HS6ST1 MUTATION ANALYSIS"
[1] 3
  HS6ST1 MUTATED HS6ST1 WILD-TYPE 
               5              172 
  HS6ST1 MUTATED HS6ST1 WILD-TYPE 
               5              172 
[1] "ZNF567 MUTATION ANALYSIS"
[1] 3
  ZNF567 MUTATED ZNF567 WILD-TYPE 
               3              174 
  ZNF567 MUTATED ZNF567 WILD-TYPE 
               3              174 
[1] "ELTD1 MUTATION ANALYSIS"
[1] 3
  ELTD1 MUTATED ELTD1 WILD-TYPE 
             18             159 
  ELTD1 MUTATED ELTD1 WILD-TYPE 
             18             159 
[1] "ASCL4 MUTATION ANALYSIS"
[1] 3
  ASCL4 MUTATED ASCL4 WILD-TYPE 
              6             171 
  ASCL4 MUTATED ASCL4 WILD-TYPE 
              6             171 
[1] "OR2G6 MUTATION ANALYSIS"
[1] 3
  OR2G6 MUTATED OR2G6 WILD-TYPE 
             16             161 
  OR2G6 MUTATED OR2G6 WILD-TYPE 
             16             161 
[1] "HLA-A MUTATION ANALYSIS"
[1] 3
  HLA-A MUTATED HLA-A WILD-TYPE 
              6             171 
  HLA-A MUTATED HLA-A WILD-TYPE 
              6             171 
[1] "NOTCH1 MUTATION ANALYSIS"
[1] 3
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              14              163 
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              14              163 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 12 rows and 177 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 177 columns, 0 survival variables, and 12 non-survival variables.
MRNA_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = CDKN2A MUTATION ANALYSIS
D1V1, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              0               37
  CLUS_2             13               35
  CLUS_3              3               13
  CLUS_4              2               17
D1V2, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              1                6
  CLUS_2             13               39
  CLUS_3              1               19
  CLUS_4              3               38
D1V3, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              3               52
  CLUS_2             16               44
  CLUS_3              7               55
D1V4, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2               26
  CLUS_2              4               25
  CLUS_3              3               14
D1V5, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2               32
  CLUS_2              8               39
  CLUS_3              3               28
D1V6, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              3               28
  CLUS_2              1               26
  CLUS_3              4               29
  CLUS_4              5               16
D1V7, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              4               31
  CLUS_2             12               50
  CLUS_3              5               48
  CLUS_4              5               22
D1V8, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             13               51
  CLUS_2              2               28
  CLUS_3             11               72
D1V9, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             16               88
  CLUS_2              3               24
  CLUS_3              5               25
D1V10, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              8               31
  CLUS_2             12               76
  CLUS_3              4               30
D1V11, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              4               21
  CLUS_2              2               14
  CLUS_3              1               10
D1V12, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              3               20
  CLUS_2              1                7
  CLUS_3              3               18

Clustering(2) Variable = TP53 MUTATION ANALYSIS
D2V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           29              8
  CLUS_2           43              5
  CLUS_3           10              6
  CLUS_4           14              5
D2V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            6              1
  CLUS_2           47              5
  CLUS_3           14              6
  CLUS_4           29             12
D2V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           34             21
  CLUS_2           53              7
  CLUS_3           54              8
D2V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           17             11
  CLUS_2           28              1
  CLUS_3           14              3
D2V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           26              8
  CLUS_2           37             10
  CLUS_3           24              7
D2V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           23              8
  CLUS_2           21              6
  CLUS_3           27              6
  CLUS_4           16              5
D2V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           27              8
  CLUS_2           55              7
  CLUS_3           43             10
  CLUS_4           16             11
D2V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           57              7
  CLUS_2           25              5
  CLUS_3           59             24
D2V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           88             16
  CLUS_2           22              5
  CLUS_3           23              7
D2V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           33              6
  CLUS_2           70             18
  CLUS_3           30              4
D2V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           22              3
  CLUS_2            9              7
  CLUS_3           11              0
D2V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           17              6
  CLUS_2            6              2
  CLUS_3           19              2

Clustering(3) Variable = NFE2L2 MUTATION ANALYSIS
D3V1, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               37
  CLUS_2             14               34
  CLUS_3              1               15
  CLUS_4              1               18
D3V2, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1                6
  CLUS_2             14               38
  CLUS_3              0               20
  CLUS_4              1               40
D3V3, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              7               48
  CLUS_2             17               43
  CLUS_3              3               59
D3V4, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              4               24
  CLUS_2              8               21
  CLUS_3              0               17
D3V5, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              8               26
  CLUS_2              5               42
  CLUS_3              6               25
D3V6, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              6               25
  CLUS_2              5               22
  CLUS_3              2               31
  CLUS_4              6               15
D3V7, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2               33
  CLUS_2             22               40
  CLUS_3              1               52
  CLUS_4              2               25
D3V8, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1             21               43
  CLUS_2              1               29
  CLUS_3              5               78
D3V9, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1             13               91
  CLUS_2              1               26
  CLUS_3             12               18
D3V10, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               38
  CLUS_2             11               77
  CLUS_3             14               20
D3V11, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2               23
  CLUS_2              3               13
  CLUS_3              4                7
D3V12, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3               20
  CLUS_2              5                3
  CLUS_3              1               20

Clustering(4) Variable = PIK3CA MUTATION ANALYSIS
D4V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4               33
  CLUS_2              6               42
  CLUS_3              3               13
  CLUS_4              4               15
D4V2, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0                7
  CLUS_2              6               46
  CLUS_3              4               16
  CLUS_4              7               34
D4V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             11               44
  CLUS_2              7               53
  CLUS_3              9               53
D4V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4               24
  CLUS_2              4               25
  CLUS_3              3               14
D4V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5               29
  CLUS_2              7               40
  CLUS_3              5               26
D4V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4               27
  CLUS_2              4               23
  CLUS_3              7               26
  CLUS_4              2               19
D4V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7               28
  CLUS_2              7               55
  CLUS_3             11               42
  CLUS_4              2               25
D4V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              9               55
  CLUS_2              5               25
  CLUS_3             13               70
D4V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             18               86
  CLUS_2              4               23
  CLUS_3              2               28
D4V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6               33
  CLUS_2             15               73
  CLUS_3              3               31
D4V11, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6               19
  CLUS_2              2               14
  CLUS_3              2                9
D4V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               20
  CLUS_2              1                7
  CLUS_3              6               15

Clustering(5) Variable = PTEN MUTATION ANALYSIS
D5V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4             33
  CLUS_2            2             46
  CLUS_3            0             16
  CLUS_4            2             17
D5V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1              6
  CLUS_2            2             50
  CLUS_3            1             19
  CLUS_4            4             37
D5V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            7             48
  CLUS_2            3             57
  CLUS_3            4             58
D5V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            5             23
  CLUS_2            3             26
  CLUS_3            0             17
D5V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3             31
  CLUS_2            4             43
  CLUS_3            1             30
D5V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             29
  CLUS_2            2             25
  CLUS_3            1             32
  CLUS_4            3             18
D5V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4             31
  CLUS_2            3             59
  CLUS_3            4             49
  CLUS_4            3             24
D5V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3             61
  CLUS_2            5             25
  CLUS_3            6             77
D5V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            9             95
  CLUS_2            3             24
  CLUS_3            0             30
D5V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3             36
  CLUS_2            8             80
  CLUS_3            1             33
D5V11, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             23
  CLUS_2            3             13
  CLUS_3            0             11
D5V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3             20
  CLUS_2            0              8
  CLUS_3            2             19

Clustering(6) Variable = KEAP1 MUTATION ANALYSIS
D6V1, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             0              37
  CLUS_2            12              36
  CLUS_3             1              15
  CLUS_4             4              15
D6V2, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             3               4
  CLUS_2            13              39
  CLUS_3             0              20
  CLUS_4             1              40
D6V3, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             3              52
  CLUS_2            12              48
  CLUS_3             7              55
D6V4, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             0              28
  CLUS_2             4              25
  CLUS_3             3              14
D6V5, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             5              29
  CLUS_2             2              45
  CLUS_3             4              27
D6V6, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             3              28
  CLUS_2             6              21
  CLUS_3             1              32
  CLUS_4             1              20
D6V7, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             1              34
  CLUS_2            12              50
  CLUS_3             6              47
  CLUS_4             3              24
D6V8, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            12              52
  CLUS_2             6              24
  CLUS_3             4              79
D6V9, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            13              91
  CLUS_2             2              25
  CLUS_3             3              27
D6V10, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             7              32
  CLUS_2             6              82
  CLUS_3             5              29
D6V11, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             3              22
  CLUS_2             0              16
  CLUS_3             1              10
D6V12, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             0               8
  CLUS_3             3              18

Clustering(7) Variable = CSMD3 MUTATION ANALYSIS
D7V1, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            16              21
  CLUS_2            17              31
  CLUS_3            10               6
  CLUS_4            10               9
D7V2, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1             3               4
  CLUS_2            21              31
  CLUS_3             9              11
  CLUS_4            20              21
D7V3, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            24              31
  CLUS_2            28              32
  CLUS_3            29              33
D7V4, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            14              14
  CLUS_2            15              14
  CLUS_3             5              12
D7V5, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            17              17
  CLUS_2            23              24
  CLUS_3            10              21
D7V6, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            16              15
  CLUS_2            11              16
  CLUS_3            15              18
  CLUS_4             8              13
D7V7, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            15              20
  CLUS_2            26              36
  CLUS_3            25              28
  CLUS_4            15              12
D7V8, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            29              35
  CLUS_2            11              19
  CLUS_3            41              42
D7V9, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            46              58
  CLUS_2            12              15
  CLUS_3            12              18
D7V10, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            18              21
  CLUS_2            39              49
  CLUS_3            13              21
D7V11, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            13              12
  CLUS_2             7               9
  CLUS_3             4               7
D7V12, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            11              12
  CLUS_2             4               4
  CLUS_3             9              12

Clustering(8) Variable = MLL2 MUTATION ANALYSIS
D8V1, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4             33
  CLUS_2           10             38
  CLUS_3            6             10
  CLUS_4            5             14
D8V2, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            1              6
  CLUS_2           13             39
  CLUS_3            3             17
  CLUS_4            8             33
D8V3, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           10             45
  CLUS_2           15             45
  CLUS_3           10             52
D8V4, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            6             22
  CLUS_2            6             23
  CLUS_3            1             16
D8V5, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            6             28
  CLUS_2            9             38
  CLUS_3            8             23
D8V6, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            5             26
  CLUS_2            4             23
  CLUS_3            6             27
  CLUS_4            8             13
D8V7, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4             31
  CLUS_2           15             47
  CLUS_3           11             42
  CLUS_4            5             22
D8V8, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           15             49
  CLUS_2            4             26
  CLUS_3           16             67
D8V9, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           19             85
  CLUS_2            6             21
  CLUS_3            4             26
D8V10, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            6             33
  CLUS_2           18             70
  CLUS_3            5             29
D8V11, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            3             22
  CLUS_2            4             12
  CLUS_3            3              8
D8V12, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4             19
  CLUS_2            3              5
  CLUS_3            3             18

Clustering(9) Variable = FBXW7 MUTATION ANALYSIS
D9V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1              36
  CLUS_2             4              44
  CLUS_3             2              14
  CLUS_4             2              17
D9V2, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             5              47
  CLUS_3             1              19
  CLUS_4             3              38
D9V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3              52
  CLUS_2             5              55
  CLUS_3             3              59
D9V4, multiclass
[1] "Remove cluster labels:" "FBXW7 MUTATED"         
clus
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              2              72 
     TCGA-18-3417      TCGA-18-4721      TCGA-18-5592      TCGA-21-5782 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-21-5784      TCGA-21-5786      TCGA-21-5787      TCGA-22-4599 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-4601      TCGA-22-4613      TCGA-22-5471      TCGA-22-5472 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5473      TCGA-22-5474      TCGA-22-5477      TCGA-22-5478 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5480      TCGA-22-5482      TCGA-22-5485      TCGA-22-5489 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5491      TCGA-22-5492      TCGA-33-4566      TCGA-33-4582 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-33-4583      TCGA-33-4586      TCGA-33-6737      TCGA-34-5231 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-34-5232      TCGA-34-5234      TCGA-34-5236      TCGA-34-5239 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-34-5240      TCGA-34-5241      TCGA-34-5927      TCGA-34-5928 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-34-5929      TCGA-37-5819      TCGA-39-5016      TCGA-39-5019 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-39-5021      TCGA-39-5022      TCGA-39-5024      TCGA-39-5027 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-39-5028      TCGA-39-5029      TCGA-39-5030      TCGA-39-5031 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-39-5035      TCGA-39-5036      TCGA-39-5037      TCGA-39-5039 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-43-5668      TCGA-43-6143      TCGA-43-6647      TCGA-43-6770 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-43-6771      TCGA-46-6025      TCGA-46-6026      TCGA-56-5897 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-56-5898      TCGA-56-6545      TCGA-56-6546      TCGA-60-2709 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-63-5128      TCGA-63-5131      TCGA-63-6202      TCGA-70-6722 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-70-6723      TCGA-85-6175      TCGA-85-6560      TCGA-85-6561 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
D9V5, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0              34
  CLUS_2             2              45
  CLUS_3             1              30
D9V6, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0              31
  CLUS_2             1              26
  CLUS_3             1              32
  CLUS_4             1              20
D9V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             2              33
  CLUS_2             5              57
  CLUS_3             3              50
  CLUS_4             1              26
D9V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             5              59
  CLUS_2             2              28
  CLUS_3             4              79
D9V9, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             7              97
  CLUS_2             1              26
  CLUS_3             1              29
D9V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             5              83
  CLUS_3             2              32
D9V11, multiclass
[1] "Remove cluster labels:" "FBXW7 MUTATED"         
clus
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              2              50 
     TCGA-18-5592      TCGA-21-5782      TCGA-21-5784      TCGA-21-5786 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-21-5787      TCGA-22-5471      TCGA-22-5472      TCGA-22-5473 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5474      TCGA-22-5477      TCGA-22-5478      TCGA-22-5480 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5482      TCGA-22-5485      TCGA-22-5489      TCGA-22-5491 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5492      TCGA-33-6737      TCGA-34-5231      TCGA-34-5232 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-34-5234      TCGA-34-5236      TCGA-34-5239      TCGA-34-5927 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-34-5928      TCGA-34-5929      TCGA-37-3783      TCGA-37-5819 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-39-5019      TCGA-39-5022      TCGA-39-5024      TCGA-39-5027 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-43-5668      TCGA-43-6143      TCGA-43-6647      TCGA-43-6770 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-43-6771      TCGA-46-6025      TCGA-46-6026      TCGA-56-5897 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-56-5898      TCGA-56-6545      TCGA-56-6546      TCGA-60-2709 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-63-6202      TCGA-70-6722      TCGA-70-6723      TCGA-85-6175 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-85-6560      TCGA-85-6561 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
D9V12, multiclass
[1] "Remove cluster labels:" "FBXW7 MUTATED"         
clus
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              2              50 
     TCGA-18-5592      TCGA-21-5782      TCGA-21-5784      TCGA-21-5786 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-21-5787      TCGA-22-5471      TCGA-22-5472      TCGA-22-5473 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5474      TCGA-22-5477      TCGA-22-5478      TCGA-22-5480 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5482      TCGA-22-5485      TCGA-22-5489      TCGA-22-5491 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-22-5492      TCGA-33-6737      TCGA-34-5231      TCGA-34-5232 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-34-5234      TCGA-34-5236      TCGA-34-5239      TCGA-34-5927 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-34-5928      TCGA-34-5929      TCGA-37-3783      TCGA-37-5819 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-39-5019      TCGA-39-5022      TCGA-39-5024      TCGA-39-5027 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-43-5668      TCGA-43-6143      TCGA-43-6647      TCGA-43-6770 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-43-6771      TCGA-46-6025      TCGA-46-6026      TCGA-56-5897 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-56-5898      TCGA-56-6545      TCGA-56-6546      TCGA-60-2709 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-63-6202      TCGA-70-6722      TCGA-70-6723      TCGA-85-6175 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-85-6560      TCGA-85-6561 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 

Clustering(10) Variable = RB1 MUTATION ANALYSIS
D10V1, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            35
  CLUS_2           5            43
  CLUS_3           0            16
  CLUS_4           3            16
D10V2, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2             5
  CLUS_2           5            47
  CLUS_3           1            19
  CLUS_4           2            39
D10V3, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            53
  CLUS_2           4            56
  CLUS_3           6            56
D10V4, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            27
  CLUS_2           3            26
  CLUS_3           1            16
D10V5, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            31
  CLUS_2           2            45
  CLUS_3           1            30
D10V6, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            30
  CLUS_2           3            24
  CLUS_3           2            31
  CLUS_4           0            21
D10V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            34
  CLUS_2           4            58
  CLUS_3           4            49
  CLUS_4           3            24
D10V8, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4            60
  CLUS_2           4            26
  CLUS_3           4            79
D10V9, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           9            95
  CLUS_2           1            26
  CLUS_3           2            28
D10V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4            35
  CLUS_2           6            82
  CLUS_3           2            32
D10V11, multiclass
[1] "Remove cluster labels:" "RB1 MUTATED"           
clus
  RB1 MUTATED RB1 WILD-TYPE 
            1            51 
   TCGA-18-5592    TCGA-18-5595    TCGA-21-5782    TCGA-21-5784    TCGA-21-5786 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-21-5787    TCGA-22-4593    TCGA-22-5471    TCGA-22-5472    TCGA-22-5473 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-22-5474    TCGA-22-5477    TCGA-22-5478    TCGA-22-5480    TCGA-22-5482 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-22-5485    TCGA-22-5489    TCGA-22-5491    TCGA-22-5492    TCGA-33-6737 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-34-5231    TCGA-34-5232    TCGA-34-5234    TCGA-34-5236    TCGA-34-5239 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-34-5927    TCGA-34-5928    TCGA-34-5929    TCGA-37-3783    TCGA-37-5819 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-39-5019    TCGA-39-5022    TCGA-39-5024    TCGA-39-5027    TCGA-43-5668 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-43-6647    TCGA-43-6770    TCGA-43-6771    TCGA-46-6025    TCGA-46-6026 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-56-5897    TCGA-56-5898    TCGA-56-6545    TCGA-56-6546    TCGA-60-2709 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-63-6202    TCGA-70-6722    TCGA-70-6723    TCGA-85-6175    TCGA-85-6560 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-85-6561 
"RB1 WILD-TYPE" 
D10V12, multiclass
[1] "Remove cluster labels:" "RB1 MUTATED"           
clus
  RB1 MUTATED RB1 WILD-TYPE 
            1            51 
   TCGA-18-5592    TCGA-18-5595    TCGA-21-5782    TCGA-21-5784    TCGA-21-5786 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-21-5787    TCGA-22-4593    TCGA-22-5471    TCGA-22-5472    TCGA-22-5473 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-22-5474    TCGA-22-5477    TCGA-22-5478    TCGA-22-5480    TCGA-22-5482 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-22-5485    TCGA-22-5489    TCGA-22-5491    TCGA-22-5492    TCGA-33-6737 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-34-5231    TCGA-34-5232    TCGA-34-5234    TCGA-34-5236    TCGA-34-5239 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-34-5927    TCGA-34-5928    TCGA-34-5929    TCGA-37-3783    TCGA-37-5819 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-39-5019    TCGA-39-5022    TCGA-39-5024    TCGA-39-5027    TCGA-43-5668 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-43-6647    TCGA-43-6770    TCGA-43-6771    TCGA-46-6025    TCGA-46-6026 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-56-5897    TCGA-56-5898    TCGA-56-6545    TCGA-56-6546    TCGA-60-2709 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-63-6202    TCGA-70-6722    TCGA-70-6723    TCGA-85-6175    TCGA-85-6560 
"RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" "RB1 WILD-TYPE" 
   TCGA-85-6561 
"RB1 WILD-TYPE" 

Clustering(11) Variable = HS6ST1 MUTATION ANALYSIS
D11V1, multiclass
        clus
vv       HS6ST1 MUTATED HS6ST1 WILD-TYPE
  CLUS_1              1               36
  CLUS_2              1               47
  CLUS_3              2               14
  CLUS_4              1               18
D11V2, multiclass
        clus
vv       HS6ST1 MUTATED HS6ST1 WILD-TYPE
  CLUS_1              1                6
  CLUS_2              1               51
  CLUS_3              1               19
  CLUS_4              2               39
D11V3, multiclass
        clus
vv       HS6ST1 MUTATED HS6ST1 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              1               59
  CLUS_3              3               59
D11V4, multiclass
[1] "Remove cluster labels:" "HS6ST1 MUTATED"        
clus
  HS6ST1 MUTATED HS6ST1 WILD-TYPE 
               1               73 
      TCGA-18-3417       TCGA-18-4721       TCGA-18-5592       TCGA-18-5595 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-21-5782       TCGA-21-5784       TCGA-21-5786       TCGA-21-5787 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-4593       TCGA-22-4599       TCGA-22-4601       TCGA-22-4613 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5471       TCGA-22-5472       TCGA-22-5473       TCGA-22-5474 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5477       TCGA-22-5478       TCGA-22-5480       TCGA-22-5482 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5485       TCGA-22-5489       TCGA-22-5491       TCGA-22-5492 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-33-4566       TCGA-33-4582       TCGA-33-4583       TCGA-33-4586 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-33-6737       TCGA-34-5231       TCGA-34-5232       TCGA-34-5234 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-34-5236       TCGA-34-5239       TCGA-34-5240       TCGA-34-5241 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-34-5927       TCGA-34-5928       TCGA-34-5929       TCGA-37-5819 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5016       TCGA-39-5019       TCGA-39-5021       TCGA-39-5022 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5024       TCGA-39-5027       TCGA-39-5028       TCGA-39-5029 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5031       TCGA-39-5035       TCGA-39-5036       TCGA-39-5037 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5039       TCGA-43-5668       TCGA-43-6143       TCGA-43-6647 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-43-6770       TCGA-43-6771       TCGA-46-6025       TCGA-46-6026 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-56-5897       TCGA-56-5898       TCGA-56-6545       TCGA-56-6546 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-60-2709       TCGA-63-5128       TCGA-63-5131       TCGA-63-6202 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-70-6722       TCGA-70-6723       TCGA-85-6175       TCGA-85-6560 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-85-6561 
"HS6ST1 WILD-TYPE" 
D11V5, multiclass
[1] "Remove cluster labels:" "HS6ST1 MUTATED"        
clus
  HS6ST1 MUTATED HS6ST1 WILD-TYPE 
               2              110 
      TCGA-18-4721       TCGA-18-5592       TCGA-18-5595       TCGA-21-1070 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-21-1071       TCGA-21-1076       TCGA-21-1078       TCGA-21-1081 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-21-5782       TCGA-21-5784       TCGA-21-5786       TCGA-21-5787 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-1011       TCGA-22-4591       TCGA-22-4607       TCGA-22-5471 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5472       TCGA-22-5473       TCGA-22-5474       TCGA-22-5477 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5478       TCGA-22-5480       TCGA-22-5482       TCGA-22-5485 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5489       TCGA-22-5491       TCGA-22-5492       TCGA-33-4532 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-33-4547       TCGA-33-4566       TCGA-33-4582       TCGA-33-4586 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-33-6737       TCGA-34-2596       TCGA-34-2608       TCGA-34-5231 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-34-5232       TCGA-34-5234       TCGA-34-5236       TCGA-34-5239 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-34-5241       TCGA-34-5927       TCGA-34-5928       TCGA-34-5929 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-37-3789       TCGA-37-4133       TCGA-37-4135       TCGA-37-4141 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-37-5819       TCGA-39-5016       TCGA-39-5019       TCGA-39-5021 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5022       TCGA-39-5024       TCGA-39-5027       TCGA-39-5028 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5029       TCGA-39-5031       TCGA-39-5035       TCGA-39-5037 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-43-2578       TCGA-43-5668       TCGA-43-6143       TCGA-43-6770 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-43-6771       TCGA-46-6025       TCGA-46-6026       TCGA-56-5897 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-56-5898       TCGA-56-6545       TCGA-56-6546       TCGA-60-2698 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-60-2708       TCGA-60-2709       TCGA-60-2710       TCGA-60-2711 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-60-2712       TCGA-60-2713       TCGA-60-2719       TCGA-60-2720 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-60-2721       TCGA-60-2724       TCGA-60-2725       TCGA-60-2726 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-63-5128       TCGA-63-5131       TCGA-63-6202       TCGA-66-2727 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2758       TCGA-66-2766       TCGA-66-2767       TCGA-66-2768 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2770       TCGA-66-2773       TCGA-66-2777       TCGA-66-2778 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2781       TCGA-66-2782       TCGA-66-2783       TCGA-66-2785 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2788       TCGA-66-2791       TCGA-66-2794       TCGA-66-2795 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2800       TCGA-70-6722       TCGA-70-6723       TCGA-85-6175 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-85-6560       TCGA-85-6561 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
D11V6, multiclass
[1] "Remove cluster labels:" "HS6ST1 MUTATED"        
clus
  HS6ST1 MUTATED HS6ST1 WILD-TYPE 
               2              110 
      TCGA-18-4721       TCGA-18-5592       TCGA-18-5595       TCGA-21-1070 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-21-1071       TCGA-21-1076       TCGA-21-1078       TCGA-21-1081 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-21-5782       TCGA-21-5784       TCGA-21-5786       TCGA-21-5787 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-1011       TCGA-22-4591       TCGA-22-4607       TCGA-22-5471 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5472       TCGA-22-5473       TCGA-22-5474       TCGA-22-5477 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5478       TCGA-22-5480       TCGA-22-5482       TCGA-22-5485 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-22-5489       TCGA-22-5491       TCGA-22-5492       TCGA-33-4532 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-33-4547       TCGA-33-4566       TCGA-33-4582       TCGA-33-4586 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-33-6737       TCGA-34-2596       TCGA-34-2608       TCGA-34-5231 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-34-5232       TCGA-34-5234       TCGA-34-5236       TCGA-34-5239 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-34-5241       TCGA-34-5927       TCGA-34-5928       TCGA-34-5929 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-37-3789       TCGA-37-4133       TCGA-37-4135       TCGA-37-4141 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-37-5819       TCGA-39-5016       TCGA-39-5019       TCGA-39-5021 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5022       TCGA-39-5024       TCGA-39-5027       TCGA-39-5028 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-39-5029       TCGA-39-5031       TCGA-39-5035       TCGA-39-5037 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-43-2578       TCGA-43-5668       TCGA-43-6143       TCGA-43-6770 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-43-6771       TCGA-46-6025       TCGA-46-6026       TCGA-56-5897 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-56-5898       TCGA-56-6545       TCGA-56-6546       TCGA-60-2698 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-60-2708       TCGA-60-2709       TCGA-60-2710       TCGA-60-2711 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-60-2712       TCGA-60-2713       TCGA-60-2719       TCGA-60-2720 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-60-2721       TCGA-60-2724       TCGA-60-2725       TCGA-60-2726 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-63-5128       TCGA-63-5131       TCGA-63-6202       TCGA-66-2727 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2758       TCGA-66-2766       TCGA-66-2767       TCGA-66-2768 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2770       TCGA-66-2773       TCGA-66-2777       TCGA-66-2778 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2781       TCGA-66-2782       TCGA-66-2783       TCGA-66-2785 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2788       TCGA-66-2791       TCGA-66-2794       TCGA-66-2795 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-66-2800       TCGA-70-6722       TCGA-70-6723       TCGA-85-6175 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
      TCGA-85-6560       TCGA-85-6561 
"HS6ST1 WILD-TYPE" "HS6ST1 WILD-TYPE" 
D11V7, multiclass
        clus
vv       HS6ST1 MUTATED HS6ST1 WILD-TYPE
  CLUS_1              1               34
  CLUS_2              1               61
  CLUS_3              3               50
  CLUS_4              0               27
D11V8, multiclass
        clus
vv       HS6ST1 MUTATED HS6ST1 WILD-TYPE
  CLUS_1              1               63
  CLUS_2              3               27
  CLUS_3              1               82
D11V9, multiclass
        clus
vv       HS6ST1 MUTATED HS6ST1 WILD-TYPE
  CLUS_1              3              101
  CLUS_2              0               27
  CLUS_3              0               30
D11V10, multiclass
        clus
vv       HS6ST1 MUTATED HS6ST1 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              2               86
  CLUS_3              0               34
D11V11, multiclass
D11V12, multiclass

Clustering(12) Variable = ZNF567 MUTATION ANALYSIS
D12V1, multiclass
[1] "Remove cluster labels:" "ZNF567 MUTATED"        
clus
  ZNF567 MUTATED ZNF567 WILD-TYPE 
               2              118 
      TCGA-18-3406       TCGA-18-3407       TCGA-18-3408       TCGA-18-3409 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-18-3410       TCGA-18-3411       TCGA-18-3412       TCGA-18-3414 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-18-3415       TCGA-18-3416       TCGA-18-3417       TCGA-18-3419 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-18-3421       TCGA-18-4083       TCGA-18-4086       TCGA-21-1070 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-21-1071       TCGA-21-1076       TCGA-21-1077       TCGA-21-1078 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-21-1081       TCGA-22-0944       TCGA-22-1002       TCGA-22-1011 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-1012       TCGA-22-1016       TCGA-22-4595       TCGA-22-4599 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-4601       TCGA-22-4604       TCGA-22-4607       TCGA-22-4613 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-33-4532       TCGA-33-4533       TCGA-33-4538       TCGA-33-4547 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-33-4566       TCGA-33-4582       TCGA-34-2596       TCGA-34-2600 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-2608       TCGA-34-5240       TCGA-34-5241       TCGA-37-3783 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-37-3789       TCGA-37-4133       TCGA-37-4135       TCGA-37-4141 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5016       TCGA-39-5021       TCGA-39-5029       TCGA-39-5035 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5036       TCGA-39-5037       TCGA-43-2578       TCGA-43-3394 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-43-3920       TCGA-46-3765       TCGA-46-3767       TCGA-46-3768 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-46-3769       TCGA-51-4079       TCGA-51-4080       TCGA-51-4081 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-56-1622       TCGA-60-2698       TCGA-60-2707       TCGA-60-2708 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2710       TCGA-60-2711       TCGA-60-2712       TCGA-60-2713 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2715       TCGA-60-2719       TCGA-60-2720       TCGA-60-2721 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2722       TCGA-60-2723       TCGA-60-2724       TCGA-60-2725 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2726       TCGA-63-5128       TCGA-63-5131       TCGA-66-2727 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2734       TCGA-66-2742       TCGA-66-2744       TCGA-66-2754 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2755       TCGA-66-2756       TCGA-66-2757       TCGA-66-2758 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2759       TCGA-66-2763       TCGA-66-2765       TCGA-66-2766 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2767       TCGA-66-2768       TCGA-66-2770       TCGA-66-2771 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2773       TCGA-66-2777       TCGA-66-2778       TCGA-66-2780 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2781       TCGA-66-2782       TCGA-66-2783       TCGA-66-2785 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2786       TCGA-66-2787       TCGA-66-2788       TCGA-66-2789 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2791       TCGA-66-2792       TCGA-66-2793       TCGA-66-2794 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2795       TCGA-66-2800 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
D12V2, multiclass
[1] "Remove cluster labels:" "ZNF567 MUTATED"        
clus
  ZNF567 MUTATED ZNF567 WILD-TYPE 
               2              118 
      TCGA-18-3406       TCGA-18-3407       TCGA-18-3408       TCGA-18-3409 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-18-3410       TCGA-18-3411       TCGA-18-3412       TCGA-18-3414 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-18-3415       TCGA-18-3416       TCGA-18-3417       TCGA-18-3419 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-18-3421       TCGA-18-4083       TCGA-18-4086       TCGA-21-1070 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-21-1071       TCGA-21-1076       TCGA-21-1077       TCGA-21-1078 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-21-1081       TCGA-22-0944       TCGA-22-1002       TCGA-22-1011 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-1012       TCGA-22-1016       TCGA-22-4595       TCGA-22-4599 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-4601       TCGA-22-4604       TCGA-22-4607       TCGA-22-4613 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-33-4532       TCGA-33-4533       TCGA-33-4538       TCGA-33-4547 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-33-4566       TCGA-33-4582       TCGA-34-2596       TCGA-34-2600 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-2608       TCGA-34-5240       TCGA-34-5241       TCGA-37-3783 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-37-3789       TCGA-37-4133       TCGA-37-4135       TCGA-37-4141 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5016       TCGA-39-5021       TCGA-39-5029       TCGA-39-5035 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5036       TCGA-39-5037       TCGA-43-2578       TCGA-43-3394 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-43-3920       TCGA-46-3765       TCGA-46-3767       TCGA-46-3768 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-46-3769       TCGA-51-4079       TCGA-51-4080       TCGA-51-4081 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-56-1622       TCGA-60-2698       TCGA-60-2707       TCGA-60-2708 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2710       TCGA-60-2711       TCGA-60-2712       TCGA-60-2713 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2715       TCGA-60-2719       TCGA-60-2720       TCGA-60-2721 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2722       TCGA-60-2723       TCGA-60-2724       TCGA-60-2725 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2726       TCGA-63-5128       TCGA-63-5131       TCGA-66-2727 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2734       TCGA-66-2742       TCGA-66-2744       TCGA-66-2754 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2755       TCGA-66-2756       TCGA-66-2757       TCGA-66-2758 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2759       TCGA-66-2763       TCGA-66-2765       TCGA-66-2766 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2767       TCGA-66-2768       TCGA-66-2770       TCGA-66-2771 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2773       TCGA-66-2777       TCGA-66-2778       TCGA-66-2780 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2781       TCGA-66-2782       TCGA-66-2783       TCGA-66-2785 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2786       TCGA-66-2787       TCGA-66-2788       TCGA-66-2789 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2791       TCGA-66-2792       TCGA-66-2793       TCGA-66-2794 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-66-2795       TCGA-66-2800 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
D12V3, multiclass
        clus
vv       ZNF567 MUTATED ZNF567 WILD-TYPE
  CLUS_1              2               53
  CLUS_2              0               60
  CLUS_3              1               61
D12V4, multiclass
[1] "Remove cluster labels:" "ZNF567 MUTATED"        
clus
  ZNF567 MUTATED ZNF567 WILD-TYPE 
               2               72 
      TCGA-18-3417       TCGA-18-4721       TCGA-18-5592       TCGA-18-5595 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-21-5782       TCGA-21-5784       TCGA-21-5786       TCGA-21-5787 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-4593       TCGA-22-4599       TCGA-22-4601       TCGA-22-4613 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5471       TCGA-22-5472       TCGA-22-5473       TCGA-22-5474 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5477       TCGA-22-5478       TCGA-22-5480       TCGA-22-5482 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5485       TCGA-22-5489       TCGA-22-5491       TCGA-22-5492 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-33-4566       TCGA-33-4582       TCGA-33-4583       TCGA-33-4586 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-33-6737       TCGA-34-5231       TCGA-34-5232       TCGA-34-5234 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-5236       TCGA-34-5239       TCGA-34-5240       TCGA-34-5241 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-5927       TCGA-34-5928       TCGA-34-5929       TCGA-37-5819 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5016       TCGA-39-5019       TCGA-39-5021       TCGA-39-5022 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5027       TCGA-39-5028       TCGA-39-5029       TCGA-39-5031 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5035       TCGA-39-5036       TCGA-39-5037       TCGA-39-5039 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-43-5668       TCGA-43-6143       TCGA-43-6647       TCGA-43-6770 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-43-6771       TCGA-46-6025       TCGA-46-6026       TCGA-56-5897 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-56-5898       TCGA-56-6545       TCGA-56-6546       TCGA-60-2709 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-63-5128       TCGA-63-5131       TCGA-63-6202       TCGA-70-6722 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-70-6723       TCGA-85-6175       TCGA-85-6560       TCGA-85-6561 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
D12V5, multiclass
        clus
vv       ZNF567 MUTATED ZNF567 WILD-TYPE
  CLUS_1              0               34
  CLUS_2              1               46
  CLUS_3              2               29
D12V6, multiclass
        clus
vv       ZNF567 MUTATED ZNF567 WILD-TYPE
  CLUS_1              2               29
  CLUS_2              1               26
  CLUS_3              0               33
  CLUS_4              0               21
D12V7, multiclass
        clus
vv       ZNF567 MUTATED ZNF567 WILD-TYPE
  CLUS_1              1               34
  CLUS_2              0               62
  CLUS_3              1               52
  CLUS_4              1               26
D12V8, multiclass
        clus
vv       ZNF567 MUTATED ZNF567 WILD-TYPE
  CLUS_1              0               64
  CLUS_2              2               28
  CLUS_3              1               82
D12V9, multiclass
        clus
vv       ZNF567 MUTATED ZNF567 WILD-TYPE
  CLUS_1              2              102
  CLUS_2              1               26
  CLUS_3              0               30
D12V10, multiclass
        clus
vv       ZNF567 MUTATED ZNF567 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              1               87
  CLUS_3              0               34
D12V11, multiclass
[1] "Remove cluster labels:" "ZNF567 MUTATED"        
clus
  ZNF567 MUTATED ZNF567 WILD-TYPE 
               1               51 
      TCGA-18-5592       TCGA-18-5595       TCGA-21-5782       TCGA-21-5784 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-21-5786       TCGA-21-5787       TCGA-22-4593       TCGA-22-5471 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5472       TCGA-22-5473       TCGA-22-5474       TCGA-22-5477 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5478       TCGA-22-5480       TCGA-22-5482       TCGA-22-5485 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5489       TCGA-22-5491       TCGA-22-5492       TCGA-33-6737 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-5231       TCGA-34-5232       TCGA-34-5234       TCGA-34-5236 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-5239       TCGA-34-5927       TCGA-34-5928       TCGA-34-5929 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-37-3783       TCGA-37-5819       TCGA-39-5019       TCGA-39-5022 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5027       TCGA-43-5668       TCGA-43-6143       TCGA-43-6647 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-43-6770       TCGA-43-6771       TCGA-46-6025       TCGA-46-6026 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-56-5897       TCGA-56-5898       TCGA-56-6545       TCGA-56-6546 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2709       TCGA-63-6202       TCGA-70-6722       TCGA-70-6723 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-85-6175       TCGA-85-6560       TCGA-85-6561 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
D12V12, multiclass
[1] "Remove cluster labels:" "ZNF567 MUTATED"        
clus
  ZNF567 MUTATED ZNF567 WILD-TYPE 
               1               51 
      TCGA-18-5592       TCGA-18-5595       TCGA-21-5782       TCGA-21-5784 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-21-5786       TCGA-21-5787       TCGA-22-4593       TCGA-22-5471 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5472       TCGA-22-5473       TCGA-22-5474       TCGA-22-5477 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5478       TCGA-22-5480       TCGA-22-5482       TCGA-22-5485 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-22-5489       TCGA-22-5491       TCGA-22-5492       TCGA-33-6737 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-5231       TCGA-34-5232       TCGA-34-5234       TCGA-34-5236 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-34-5239       TCGA-34-5927       TCGA-34-5928       TCGA-34-5929 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-37-3783       TCGA-37-5819       TCGA-39-5019       TCGA-39-5022 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-39-5027       TCGA-43-5668       TCGA-43-6143       TCGA-43-6647 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-43-6770       TCGA-43-6771       TCGA-46-6025       TCGA-46-6026 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-56-5897       TCGA-56-5898       TCGA-56-6545       TCGA-56-6546 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-60-2709       TCGA-63-6202       TCGA-70-6722       TCGA-70-6723 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 
      TCGA-85-6175       TCGA-85-6560       TCGA-85-6561 
"ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" "ZNF567 WILD-TYPE" 

Clustering(13) Variable = ELTD1 MUTATION ANALYSIS
D13V1, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             3              34
  CLUS_2             2              46
  CLUS_3             5              11
  CLUS_4             2              17
D13V2, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             3              49
  CLUS_3             2              18
  CLUS_4             7              34
D13V3, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             9              46
  CLUS_2             5              55
  CLUS_3             4              58
D13V4, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             4              24
  CLUS_2             2              27
  CLUS_3             1              16
D13V5, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             4              30
  CLUS_2             6              41
  CLUS_3             1              30
D13V6, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             4              27
  CLUS_2             1              26
  CLUS_3             4              29
  CLUS_4             2              19
D13V7, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             2              33
  CLUS_2             4              58
  CLUS_3             7              46
  CLUS_4             5              22
D13V8, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             4              60
  CLUS_2             3              27
  CLUS_3            11              72
D13V9, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             7              97
  CLUS_2             5              22
  CLUS_3             2              28
D13V10, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             9              79
  CLUS_3             2              32
D13V11, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             3              22
  CLUS_2             3              13
  CLUS_3             1              10
D13V12, multiclass
        clus
vv       ELTD1 MUTATED ELTD1 WILD-TYPE
  CLUS_1             5              18
  CLUS_2             1               7
  CLUS_3             1              20

Clustering(14) Variable = ASCL4 MUTATION ANALYSIS
D14V1, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             0              37
  CLUS_2             2              46
  CLUS_3             2              14
  CLUS_4             2              17
D14V2, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             2              50
  CLUS_3             1              19
  CLUS_4             2              39
D14V3, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             2              53
  CLUS_2             3              57
  CLUS_3             1              61
D14V4, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             1              27
  CLUS_2             2              27
  CLUS_3             0              17
D14V5, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             2              32
  CLUS_2             1              46
  CLUS_3             1              30
D14V6, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             2              29
  CLUS_2             1              26
  CLUS_3             1              32
  CLUS_4             0              21
D14V7, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             0              35
  CLUS_2             3              59
  CLUS_3             2              51
  CLUS_4             1              26
D14V8, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             3              61
  CLUS_2             2              28
  CLUS_3             1              82
D14V9, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             4             100
  CLUS_2             0              27
  CLUS_3             2              28
D14V10, multiclass
        clus
vv       ASCL4 MUTATED ASCL4 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             3              85
  CLUS_3             2              32
D14V11, multiclass
D14V12, multiclass

Clustering(15) Variable = OR2G6 MUTATION ANALYSIS
D15V1, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             5              32
  CLUS_2             2              46
  CLUS_3             2              14
  CLUS_4             2              17
D15V2, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             2              50
  CLUS_3             2              18
  CLUS_4             6              35
D15V3, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             2              53
  CLUS_2             5              55
  CLUS_3             9              53
D15V4, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             2              26
  CLUS_2             3              26
  CLUS_3             1              16
D15V5, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             2              32
  CLUS_2             4              43
  CLUS_3             2              29
D15V6, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             2              29
  CLUS_2             1              26
  CLUS_3             4              29
  CLUS_4             1              20
D15V7, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             3              32
  CLUS_2             3              59
  CLUS_3             8              45
  CLUS_4             2              25
D15V8, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             4              60
  CLUS_2             5              25
  CLUS_3             7              76
D15V9, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1            10              94
  CLUS_2             3              24
  CLUS_3             1              29
D15V10, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             9              79
  CLUS_3             1              33
D15V11, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             2              23
  CLUS_2             1              15
  CLUS_3             1              10
D15V12, multiclass
        clus
vv       OR2G6 MUTATED OR2G6 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             0               8
  CLUS_3             3              18

Clustering(16) Variable = HLA-A MUTATION ANALYSIS
D16V1, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              36
  CLUS_2             0              48
  CLUS_3             2              14
  CLUS_4             0              19
D16V2, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0               7
  CLUS_2             0              52
  CLUS_3             1              19
  CLUS_4             2              39
D16V3, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              54
  CLUS_2             1              59
  CLUS_3             4              58
D16V4, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              27
  CLUS_2             0              29
  CLUS_3             2              15
D16V5, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              33
  CLUS_2             2              45
  CLUS_3             1              30
D16V6, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2              29
  CLUS_2             0              27
  CLUS_3             2              31
  CLUS_4             0              21
D16V7, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              34
  CLUS_2             0              62
  CLUS_3             3              50
  CLUS_4             2              25
D16V8, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0              64
  CLUS_2             1              29
  CLUS_3             5              78
D16V9, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             5              99
  CLUS_2             1              26
  CLUS_3             0              30
D16V10, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2              37
  CLUS_2             4              84
  CLUS_3             0              34
D16V11, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             3              22
  CLUS_2             0              16
  CLUS_3             0              11
D16V12, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             0              23
  CLUS_2             0               8
  CLUS_3             3              18

Clustering(17) Variable = NOTCH1 MUTATION ANALYSIS
D17V1, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              1               36
  CLUS_2              4               44
  CLUS_3              1               15
  CLUS_4              1               18
D17V2, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              0                7
  CLUS_2              4               48
  CLUS_3              1               19
  CLUS_4              2               39
D17V3, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              3               52
  CLUS_2              5               55
  CLUS_3              6               56
D17V4, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              0               28
  CLUS_2              5               24
  CLUS_3              3               14
D17V5, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              1               33
  CLUS_2              4               43
  CLUS_3              3               28
D17V6, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              3               28
  CLUS_2              1               26
  CLUS_3              3               30
  CLUS_4              1               20
D17V7, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              2               33
  CLUS_2              6               56
  CLUS_3              5               48
  CLUS_4              1               26
D17V8, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              7               57
  CLUS_2              2               28
  CLUS_3              5               78
D17V9, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             11               93
  CLUS_2              0               27
  CLUS_3              2               28
D17V10, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              5               34
  CLUS_2              4               84
  CLUS_3              4               30
D17V11, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              3               22
  CLUS_2              1               15
  CLUS_3              2                9
D17V12, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              2               21
  CLUS_2              0                8
  CLUS_3              4               17
                           V1                            V2 
                  "MRNA_CNMF"          "MRNA_CHIERARCHICAL" 
                           V3                            V4 
                    "CN_CNMF"            "METHLYATION_CNMF" 
                           V5                            V6 
                  "RPPA_CNMF"          "RPPA_CHIERARCHICAL" 
                           V7                            V8 
               "MRNASEQ_CNMF"       "MRNASEQ_CHIERARCHICAL" 
                           V9                           V10 
                "MIRSEQ_CNMF"        "MIRSEQ_CHIERARCHICAL" 
                          V11                           V12 
         "MIRSEQ_MATURE_CNMF" "MIRSEQ_MATURE_CHIERARCHICAL" 
> q(save="no")
