
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/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LGG-TP/6244095/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LGG-TP/6165954/LGG-TP.transferedmergedcluster.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=LGG-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"        "-oT=LGG-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LGG-TP/6165954/LGG-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LGG-TP/6244095/transformed.cor.cli.txt"

nPatients in clinical file=408, in cluster file=289, common to both=289
[1] "Reduce the number of clustering variables from 25 to 23."
[1]  23 289
[1] "NOTCH1 MUTATION ANALYSIS"
[1] 3
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              29              260 
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              29              260 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              25              264 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              25              264 
[1] "IDH2 MUTATION ANALYSIS"
[1] 3
  IDH2 MUTATED IDH2 WILD-TYPE 
            12            277 
  IDH2 MUTATED IDH2 WILD-TYPE 
            12            277 
[1] "IDH1 MUTATION ANALYSIS"
[1] 3
  IDH1 MUTATED IDH1 WILD-TYPE 
           220             69 
  IDH1 MUTATED IDH1 WILD-TYPE 
           220             69 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           146            143 
  TP53 MUTATED TP53 WILD-TYPE 
           146            143 
[1] "STK19 MUTATION ANALYSIS"
[1] 3
  STK19 MUTATED STK19 WILD-TYPE 
              8             281 
  STK19 MUTATED STK19 WILD-TYPE 
              8             281 
[1] "CIC MUTATION ANALYSIS"
[1] 3
  CIC MUTATED CIC WILD-TYPE 
           54           235 
  CIC MUTATED CIC WILD-TYPE 
           54           235 
[1] "ATRX MUTATION ANALYSIS"
[1] 3
  ATRX MUTATED ATRX WILD-TYPE 
           114            175 
  ATRX MUTATED ATRX WILD-TYPE 
           114            175 
[1] "FUBP1 MUTATION ANALYSIS"
[1] 3
  FUBP1 MUTATED FUBP1 WILD-TYPE 
             26             263 
  FUBP1 MUTATED FUBP1 WILD-TYPE 
             26             263 
[1] "EGFR MUTATION ANALYSIS"
[1] 3
  EGFR MUTATED EGFR WILD-TYPE 
            17            272 
  EGFR MUTATED EGFR WILD-TYPE 
            17            272 
[1] "PIK3R1 MUTATION ANALYSIS"
[1] 3
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              13              276 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              13              276 
[1] "PCDHAC2 MUTATION ANALYSIS"
[1] 3
  PCDHAC2 MUTATED PCDHAC2 WILD-TYPE 
               17               272 
  PCDHAC2 MUTATED PCDHAC2 WILD-TYPE 
               17               272 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            13            276 
  PTEN MUTATED PTEN WILD-TYPE 
            13            276 
[1] "CREBZF MUTATION ANALYSIS"
[1] 3
  CREBZF MUTATED CREBZF WILD-TYPE 
               5              284 
  CREBZF MUTATED CREBZF WILD-TYPE 
               5              284 
[1] "EIF1AX MUTATION ANALYSIS"
[1] 3
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               4              285 
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               4              285 
[1] "HTRA2 MUTATION ANALYSIS"
[1] 3
  HTRA2 MUTATED HTRA2 WILD-TYPE 
              4             285 
  HTRA2 MUTATED HTRA2 WILD-TYPE 
              4             285 
[1] "VAV3 MUTATION ANALYSIS"
[1] 3
  VAV3 MUTATED VAV3 WILD-TYPE 
             8            281 
  VAV3 MUTATED VAV3 WILD-TYPE 
             8            281 
[1] "TMEM216 MUTATION ANALYSIS"
[1] 3
  TMEM216 MUTATED TMEM216 WILD-TYPE 
                3               286 
  TMEM216 MUTATED TMEM216 WILD-TYPE 
                3               286 
[1] "SPANXE MUTATION ANALYSIS"
[1] 3
  SPANXE MUTATED SPANXE WILD-TYPE 
               4              285 
  SPANXE MUTATED SPANXE WILD-TYPE 
               4              285 
[1] "TCF12 MUTATION ANALYSIS"
[1] 3
  TCF12 MUTATED TCF12 WILD-TYPE 
              8             281 
  TCF12 MUTATED TCF12 WILD-TYPE 
              8             281 
[1] "SMARCA4 MUTATION ANALYSIS"
[1] 3
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               13               276 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               13               276 
[1] "NF1 MUTATION ANALYSIS"
[1] 3
  NF1 MUTATED NF1 WILD-TYPE 
           19           270 
  NF1 MUTATED NF1 WILD-TYPE 
           19           270 
[1] "BCOR MUTATION ANALYSIS"
[1] 3
  BCOR MUTATED BCOR WILD-TYPE 
             9            280 
  BCOR MUTATED BCOR WILD-TYPE 
             9            280 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [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 289 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=3,	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=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=8,	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 289 columns, 0 survival variables, and 12 non-survival variables.
MRNA_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=6, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=8, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = NOTCH1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        0      2      1
  NOTCH1 WILD-TYPE      9      8      6
D1V1, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              0                9
  CLUS_2              2                8
  CLUS_3              1                6
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH1 MUTATED        2      1      0      0
  NOTCH1 WILD-TYPE      5      4     10      4
D1V2, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              2                5
  CLUS_2              1                4
  CLUS_3              0               10
  CLUS_4              0                4
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        5      3     21
  NOTCH1 WILD-TYPE    111     64     82
D1V3, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              5              111
  CLUS_2              3               64
  CLUS_3             21               82
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH1 MUTATED        6      0     22      0
  NOTCH1 WILD-TYPE    125     45     54     33
D1V4, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              6              125
  CLUS_2              0               45
  CLUS_3             22               54
  CLUS_4              0               33
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH1 MUTATED        4      6      7      9
  NOTCH1 WILD-TYPE     48     55     58     64
D1V5, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              4               48
  CLUS_2              6               55
  CLUS_3              7               58
  CLUS_4              9               64
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        2     11     13
  NOTCH1 WILD-TYPE      6    115    104
D1V6, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              2                6
  CLUS_2             11              115
  CLUS_3             13              104
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NOTCH1 MUTATED        2      1     11     15      0      0
  NOTCH1 WILD-TYPE     72     57     35     75      7     13
D1V7, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        9      3     17
  NOTCH1 WILD-TYPE     33    140     86
D1V8, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              9               33
  CLUS_2              3              140
  CLUS_3             17               86
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOTCH1 MUTATED        1      2     17      3      6
  NOTCH1 WILD-TYPE     71     54     80     12     43
D1V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        0      6     23
  NOTCH1 WILD-TYPE      2    154    104
D1V10, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              0                2
  CLUS_2              6              154
  CLUS_3             23              104
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NOTCH1 MUTATED        1      0      6     13      6      3      0      0
  NOTCH1 WILD-TYPE     47     46     31     66     23     29      4     14
D1V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        0      6     23
  NOTCH1 WILD-TYPE      9    154     97
D1V12, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              0                9
  CLUS_2              6              154
  CLUS_3             23               97

Clustering(2) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      0      0
  PIK3CA WILD-TYPE      9     10      7
D2V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        0      0      0      0
  PIK3CA WILD-TYPE      7      5     10      4
D2V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        2      6     17
  PIK3CA WILD-TYPE    114     61     86
D2V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2              114
  CLUS_2              6               61
  CLUS_3             17               86
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        1      5     15      4
  PIK3CA WILD-TYPE    130     40     61     29
D2V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1              130
  CLUS_2              5               40
  CLUS_3             15               61
  CLUS_4              4               29
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        3      7      4      8
  PIK3CA WILD-TYPE     49     54     61     65
D2V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               49
  CLUS_2              7               54
  CLUS_3              4               61
  CLUS_4              8               65
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        2      8     12
  PIK3CA WILD-TYPE      6    118    105
D2V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2                6
  CLUS_2              8              118
  CLUS_3             12              105
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        1      5      7      9      0      3
  PIK3CA WILD-TYPE     73     53     39     81      7     10
D2V7, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        7      7     11
  PIK3CA WILD-TYPE     35    136     92
D2V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7               35
  CLUS_2              7              136
  CLUS_3             11               92
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        4      5      9      4      3
  PIK3CA WILD-TYPE     68     51     88     11     46
D2V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0     15     10
  PIK3CA WILD-TYPE      2    145    117
D2V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0                2
  CLUS_2             15              145
  CLUS_3             10              117
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3CA MUTATED        0      5      1      8      6      2      0      3
  PIK3CA WILD-TYPE     48     41     36     71     23     30      4     11
D2V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0     13     12
  PIK3CA WILD-TYPE      9    147    108
D2V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0                9
  CLUS_2             13              147
  CLUS_3             12              108

Clustering(3) Variable = IDH2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        0      2      0
  IDH2 WILD-TYPE      9      8      7
D3V1, multiclass
[1] "Remove cluster labels:" "IDH2 MUTATED"          
clus
  IDH2 MUTATED IDH2 WILD-TYPE 
             2             24 
    TCGA-CS-4942     TCGA-CS-4943     TCGA-CS-4944     TCGA-CS-5390 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CS-5394     TCGA-CS-5395     TCGA-CS-5396     TCGA-DB-5273 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DB-5274     TCGA-DB-5275     TCGA-DB-5276     TCGA-DB-5277 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DB-5278     TCGA-DB-5280     TCGA-DB-5281     TCGA-DH-5140 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DH-5142     TCGA-DH-5143     TCGA-DH-5144     TCGA-E1-5302 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5311     TCGA-E1-5322 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH2 MUTATED        2      0      0      0
  IDH2 WILD-TYPE      5      5     10      4
D3V2, multiclass
[1] "Remove cluster labels:" "IDH2 MUTATED"          
clus
  IDH2 MUTATED IDH2 WILD-TYPE 
             2             24 
    TCGA-CS-4942     TCGA-CS-4943     TCGA-CS-4944     TCGA-CS-5390 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-CS-5394     TCGA-CS-5395     TCGA-CS-5396     TCGA-DB-5273 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DB-5274     TCGA-DB-5275     TCGA-DB-5276     TCGA-DB-5277 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DB-5278     TCGA-DB-5280     TCGA-DB-5281     TCGA-DH-5140 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-DH-5142     TCGA-DH-5143     TCGA-DH-5144     TCGA-E1-5302 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
    TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5311     TCGA-E1-5322 
"IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" "IDH2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        3      1      8
  IDH2 WILD-TYPE    113     66     95
D3V3, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            3            113
  CLUS_2            1             66
  CLUS_3            8             95
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH2 MUTATED        2      0      6      4
  IDH2 WILD-TYPE    129     45     70     29
D3V4, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            0             45
  CLUS_3            6             70
  CLUS_4            4             29
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH2 MUTATED        1      4      2      5
  IDH2 WILD-TYPE     51     57     63     68
D3V5, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            1             51
  CLUS_2            4             57
  CLUS_3            2             63
  CLUS_4            5             68
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        0      6      6
  IDH2 WILD-TYPE      8    120    111
D3V6, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            6            120
  CLUS_3            6            111
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IDH2 MUTATED        0      0      4      8      0      0
  IDH2 WILD-TYPE     74     58     42     82      7     13
D3V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        4      0      8
  IDH2 WILD-TYPE     38    143     95
D3V8, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            0            143
  CLUS_3            8             95
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH2 MUTATED        2      0      8      2      0
  IDH2 WILD-TYPE     70     56     89     13     49
D3V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        0      3      9
  IDH2 WILD-TYPE      2    157    118
D3V10, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            0              2
  CLUS_2            3            157
  CLUS_3            9            118
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IDH2 MUTATED        0      0      2      6      3      1      0      0
  IDH2 WILD-TYPE     48     46     35     73     26     31      4     14
D3V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH2 MUTATED        0      3      9
  IDH2 WILD-TYPE      9    157    111
D3V12, multiclass
        clus
vv       IDH2 MUTATED IDH2 WILD-TYPE
  CLUS_1            0              9
  CLUS_2            3            157
  CLUS_3            9            111

Clustering(4) Variable = IDH1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        9      7      6
  IDH1 WILD-TYPE      0      3      1
D4V1, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            9              0
  CLUS_2            7              3
  CLUS_3            6              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH1 MUTATED        5      5      9      3
  IDH1 WILD-TYPE      2      0      1      1
D4V2, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            5              2
  CLUS_2            5              0
  CLUS_3            9              1
  CLUS_4            3              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED      100     24     94
  IDH1 WILD-TYPE     16     43      9
D4V3, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1          100             16
  CLUS_2           24             43
  CLUS_3           94              9
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH1 MUTATED      128      1     70     18
  IDH1 WILD-TYPE      3     44      6     15
D4V4, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1          128              3
  CLUS_2            1             44
  CLUS_3           70              6
  CLUS_4           18             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDH1 MUTATED       42     31     61     57
  IDH1 WILD-TYPE     10     30      4     16
D4V5, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1           42             10
  CLUS_2           31             30
  CLUS_3           61              4
  CLUS_4           57             16
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        8     88     95
  IDH1 WILD-TYPE      0     38     22
D4V6, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            8              0
  CLUS_2           88             38
  CLUS_3           95             22
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IDH1 MUTATED       73     16     42     69      6     13
  IDH1 WILD-TYPE      1     42      4     21      1      0
D4V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED       38     98     83
  IDH1 WILD-TYPE      4     45     20
D4V8, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1           38              4
  CLUS_2           98             45
  CLUS_3           83             20
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IDH1 MUTATED       47     40     77     13     43
  IDH1 WILD-TYPE     25     16     20      2      6
D4V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        2    118    100
  IDH1 WILD-TYPE      0     42     27
D4V10, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            2              0
  CLUS_2          118             42
  CLUS_3          100             27
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  IDH1 MUTATED       48     13     34     61     26     21      4     13
  IDH1 WILD-TYPE      0     33      3     18      3     11      0      1
D4V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDH1 MUTATED        1    118    101
  IDH1 WILD-TYPE      8     42     19
D4V12, multiclass
        clus
vv       IDH1 MUTATED IDH1 WILD-TYPE
  CLUS_1            1              8
  CLUS_2          118             42
  CLUS_3          101             19

Clustering(5) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        8      4      3
  TP53 WILD-TYPE      1      6      4
D5V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            8              1
  CLUS_2            4              6
  CLUS_3            3              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        1      2      8      4
  TP53 WILD-TYPE      6      3      2      0
D5V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            2              3
  CLUS_3            8              2
  CLUS_4            4              0
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       98     27     21
  TP53 WILD-TYPE     18     40     82
D5V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           98             18
  CLUS_2           27             40
  CLUS_3           21             82
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED      126      8      3      9
  TP53 WILD-TYPE      5     37     73     24
D5V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          126              5
  CLUS_2            8             37
  CLUS_3            3             73
  CLUS_4            9             24
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       33     30     39     29
  TP53 WILD-TYPE     19     31     26     44
D5V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           33             19
  CLUS_2           30             31
  CLUS_3           39             26
  CLUS_4           29             44
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        5     68     58
  TP53 WILD-TYPE      3     58     59
D5V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            5              3
  CLUS_2           68             58
  CLUS_3           58             59
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED       74     20      2     37      6      7
  TP53 WILD-TYPE      0     38     44     53      1      6
D5V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        1    102     43
  TP53 WILD-TYPE     41     41     60
D5V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             41
  CLUS_2          102             41
  CLUS_3           43             60
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       40     40     37      3     26
  TP53 WILD-TYPE     32     16     60     12     23
D5V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        2     95     49
  TP53 WILD-TYPE      0     65     78
D5V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2              0
  CLUS_2           95             65
  CLUS_3           49             78
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TP53 MUTATED       47     15     25     31      7     13      4      4
  TP53 WILD-TYPE      1     31     12     48     22     19      0     10
D5V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        3     99     44
  TP53 WILD-TYPE      6     61     76
D5V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3              6
  CLUS_2           99             61
  CLUS_3           44             76

Clustering(6) Variable = STK19 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      0      0
  STK19 WILD-TYPE      9     10      7
D6V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK19 MUTATED        0      0      0      0
  STK19 WILD-TYPE      7      5     10      4
D6V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        5      2      1
  STK19 WILD-TYPE    111     65    102
D6V3, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             5             111
  CLUS_2             2              65
  CLUS_3             1             102
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK19 MUTATED        4      2      0      2
  STK19 WILD-TYPE    127     43     76     31
D6V4, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             2              43
  CLUS_3             0              76
  CLUS_4             2              31
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK19 MUTATED        4      0      0      2
  STK19 WILD-TYPE     48     61     65     71
D6V5, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             4              48
  CLUS_2             0              61
  CLUS_3             0              65
  CLUS_4             2              71
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        1      0      5
  STK19 WILD-TYPE      7    126    112
D6V6, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1               7
  CLUS_2             0             126
  CLUS_3             5             112
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK19 MUTATED        2      2      0      4      0      0
  STK19 WILD-TYPE     72     56     46     86      7     13
D6V7, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      4      4
  STK19 WILD-TYPE     42    139     99
D6V8, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4             139
  CLUS_3             4              99
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK19 MUTATED        1      3      4      0      0
  STK19 WILD-TYPE     71     53     93     15     49
D6V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      4      4
  STK19 WILD-TYPE      2    156    123
D6V10, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             0               2
  CLUS_2             4             156
  CLUS_3             4             123
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK19 MUTATED        1      1      3      3      0      0      0      0
  STK19 WILD-TYPE     47     45     34     76     29     32      4     14
D6V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      4      4
  STK19 WILD-TYPE      9    156    116
D6V12, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             0               9
  CLUS_2             4             156
  CLUS_3             4             116

Clustering(7) Variable = CIC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        0      5      2
  CIC WILD-TYPE      9      5      5
D7V1, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0             9
  CLUS_2           5             5
  CLUS_3           2             5
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CIC MUTATED        5      2      0      0
  CIC WILD-TYPE      2      3     10      4
D7V2, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           5             2
  CLUS_2           2             3
  CLUS_3           0            10
  CLUS_4           0             4
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        0      3     51
  CIC WILD-TYPE    116     64     52
D7V3, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0           116
  CLUS_2           3            64
  CLUS_3          51            52
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CIC MUTATED        0      0     50      3
  CIC WILD-TYPE    131     45     26     30
D7V4, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0           131
  CLUS_2           0            45
  CLUS_3          50            26
  CLUS_4           3            30
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CIC MUTATED        1      6     20     15
  CIC WILD-TYPE     51     55     45     58
D7V5, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           1            51
  CLUS_2           6            55
  CLUS_3          20            45
  CLUS_4          15            58
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        3     22     17
  CIC WILD-TYPE      5    104    100
D7V6, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           3             5
  CLUS_2          22           104
  CLUS_3          17           100
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CIC MUTATED        0      0     33     19      0      2
  CIC WILD-TYPE     74     58     13     71      7     11
D7V7, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED       29      1     24
  CIC WILD-TYPE     13    142     79
D7V8, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1          29            13
  CLUS_2           1           142
  CLUS_3          24            79
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CIC MUTATED       11      2     23      9      9
  CIC WILD-TYPE     61     54     74      6     40
D7V9, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        0     21     33
  CIC WILD-TYPE      2    139     94
D7V10, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0             2
  CLUS_2          21           139
  CLUS_3          33            94
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CIC MUTATED        0      2      8     17     18      5      0      4
  CIC WILD-TYPE     48     44     29     62     11     27      4     10
D7V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CIC MUTATED        0     21     33
  CIC WILD-TYPE      9    139     87
D7V12, multiclass
        clus
vv       CIC MUTATED CIC WILD-TYPE
  CLUS_1           0             9
  CLUS_2          21           139
  CLUS_3          33            87

Clustering(8) Variable = ATRX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATRX MUTATED        8      3      2
  ATRX WILD-TYPE      1      7      5
D8V1, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1            8              1
  CLUS_2            3              7
  CLUS_3            2              5
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATRX MUTATED        1      2      8      2
  ATRX WILD-TYPE      6      3      2      2
D8V2, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1            1              6
  CLUS_2            2              3
  CLUS_3            8              2
  CLUS_4            2              2
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATRX MUTATED       79     19     16
  ATRX WILD-TYPE     37     48     87
D8V3, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1           79             37
  CLUS_2           19             48
  CLUS_3           16             87
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATRX MUTATED      103      2      2      7
  ATRX WILD-TYPE     28     43     74     26
D8V4, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1          103             28
  CLUS_2            2             43
  CLUS_3            2             74
  CLUS_4            7             26
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATRX MUTATED       25     23     31     25
  ATRX WILD-TYPE     27     38     34     48
D8V5, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1           25             27
  CLUS_2           23             38
  CLUS_3           31             34
  CLUS_4           25             48
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATRX MUTATED        4     51     49
  ATRX WILD-TYPE      4     75     68
D8V6, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1            4              4
  CLUS_2           51             75
  CLUS_3           49             68
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATRX MUTATED       60     12      1     33      3      5
  ATRX WILD-TYPE     14     46     45     57      4      8
D8V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATRX MUTATED        1     75     38
  ATRX WILD-TYPE     41     68     65
D8V8, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1            1             41
  CLUS_2           75             68
  CLUS_3           38             65
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATRX MUTATED       28     33     31      3     19
  ATRX WILD-TYPE     44     23     66     12     30
D8V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATRX MUTATED        1     74     39
  ATRX WILD-TYPE      1     86     88
D8V10, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1            1              1
  CLUS_2           74             86
  CLUS_3           39             88
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATRX MUTATED       35     10     20     24      7     10      3      5
  ATRX WILD-TYPE     13     36     17     55     22     22      1      9
D8V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATRX MUTATED        1     75     38
  ATRX WILD-TYPE      8     85     82
D8V12, multiclass
        clus
vv       ATRX MUTATED ATRX WILD-TYPE
  CLUS_1            1              8
  CLUS_2           75             85
  CLUS_3           38             82

Clustering(9) Variable = FUBP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP1 MUTATED        0      4      0
  FUBP1 WILD-TYPE      9      6      7
D9V1, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             0               9
  CLUS_2             4               6
  CLUS_3             0               7
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FUBP1 MUTATED        4      0      0      0
  FUBP1 WILD-TYPE      3      5     10      4
D9V2, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             4               3
  CLUS_2             0               5
  CLUS_3             0              10
  CLUS_4             0               4
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP1 MUTATED        0      0     26
  FUBP1 WILD-TYPE    116     67     77
D9V3, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             0             116
  CLUS_2             0              67
  CLUS_3            26              77
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FUBP1 MUTATED        0      0     21      2
  FUBP1 WILD-TYPE    131     45     55     31
D9V4, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             0              45
  CLUS_3            21              55
  CLUS_4             2              31
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FUBP1 MUTATED        1      2      9     10
  FUBP1 WILD-TYPE     51     59     56     63
D9V5, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             1              51
  CLUS_2             2              59
  CLUS_3             9              56
  CLUS_4            10              63
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP1 MUTATED        2      9     11
  FUBP1 WILD-TYPE      6    117    106
D9V6, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             2               6
  CLUS_2             9             117
  CLUS_3            11             106
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FUBP1 MUTATED        0      0     16      8      0      2
  FUBP1 WILD-TYPE     74     58     30     82      7     11
D9V7, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP1 MUTATED       15      0     11
  FUBP1 WILD-TYPE     27    143     92
D9V8, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1            15              27
  CLUS_2             0             143
  CLUS_3            11              92
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FUBP1 MUTATED        5      0     11      5      5
  FUBP1 WILD-TYPE     67     56     86     10     44
D9V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP1 MUTATED        0     12     14
  FUBP1 WILD-TYPE      2    148    113
D9V10, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             0               2
  CLUS_2            12             148
  CLUS_3            14             113
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FUBP1 MUTATED        0      2      3      9      7      3      0      2
  FUBP1 WILD-TYPE     48     44     34     70     22     29      4     12
D9V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FUBP1 MUTATED        0     10     16
  FUBP1 WILD-TYPE      9    150    104
D9V12, multiclass
        clus
vv       FUBP1 MUTATED FUBP1 WILD-TYPE
  CLUS_1             0               9
  CLUS_2            10             150
  CLUS_3            16             104

Clustering(10) Variable = EGFR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        0      0      0
  EGFR WILD-TYPE      9     10      7
D10V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED        0      0      0      0
  EGFR WILD-TYPE      7      5     10      4
D10V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        1     16      0
  EGFR WILD-TYPE    115     51    103
D10V3, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1            115
  CLUS_2           16             51
  CLUS_3            0            103
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED        0     15      1      1
  EGFR WILD-TYPE    131     30     75     32
D10V4, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            0            131
  CLUS_2           15             30
  CLUS_3            1             75
  CLUS_4            1             32
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED        1      9      1      3
  EGFR WILD-TYPE     51     52     64     70
D10V5, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1             51
  CLUS_2            9             52
  CLUS_3            1             64
  CLUS_4            3             70
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        0     11      3
  EGFR WILD-TYPE      8    115    114
D10V6, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            0              8
  CLUS_2           11            115
  CLUS_3            3            114
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        0     13      0      4      0      0
  EGFR WILD-TYPE     74     45     46     86      7     13
D10V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        1     13      3
  EGFR WILD-TYPE     41    130    100
D10V8, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1             41
  CLUS_2           13            130
  CLUS_3            3            100
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGFR MUTATED        7      4      4      0      2
  EGFR WILD-TYPE     65     52     93     15     47
D10V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        0     10      7
  EGFR WILD-TYPE      2    150    120
D10V10, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            0              2
  CLUS_2           10            150
  CLUS_3            7            120
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EGFR MUTATED        0     10      1      4      0      2      0      0
  EGFR WILD-TYPE     48     36     36     75     29     30      4     14
D10V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        3     10      4
  EGFR WILD-TYPE      6    150    116
D10V12, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            3              6
  CLUS_2           10            150
  CLUS_3            4            116

Clustering(11) Variable = PIK3R1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        2      1      0
  PIK3R1 WILD-TYPE      7      9      7
D11V1, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              2                7
  CLUS_2              1                9
  CLUS_3              0                7
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        1      0      2      0
  PIK3R1 WILD-TYPE      6      5      8      4
D11V2, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              1                6
  CLUS_2              0                5
  CLUS_3              2                8
  CLUS_4              0                4
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        2      2      9
  PIK3R1 WILD-TYPE    114     65     94
D11V3, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              2              114
  CLUS_2              2               65
  CLUS_3              9               94
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        4      1      7      0
  PIK3R1 WILD-TYPE    127     44     69     33
D11V4, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              4              127
  CLUS_2              1               44
  CLUS_3              7               69
  CLUS_4              0               33
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        3      2      4      4
  PIK3R1 WILD-TYPE     49     59     61     69
D11V5, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3               49
  CLUS_2              2               59
  CLUS_3              4               61
  CLUS_4              4               69
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        0      7      6
  PIK3R1 WILD-TYPE      8    119    111
D11V6, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              0                8
  CLUS_2              7              119
  CLUS_3              6              111
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3R1 MUTATED        2      3      3      5      0      0
  PIK3R1 WILD-TYPE     72     55     43     85      7     13
D11V7, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        3      5      5
  PIK3R1 WILD-TYPE     39    138     98
D11V8, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              5              138
  CLUS_3              5               98
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R1 MUTATED        4      1      3      2      3
  PIK3R1 WILD-TYPE     68     55     94     13     46
D11V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        0      9      4
  PIK3R1 WILD-TYPE      2    151    123
D11V10, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              0                2
  CLUS_2              9              151
  CLUS_3              4              123
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3R1 MUTATED        1      2      1      3      1      5      0      0
  PIK3R1 WILD-TYPE     47     44     36     76     28     27      4     14
D11V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        0      8      5
  PIK3R1 WILD-TYPE      9    152    115
D11V12, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              0                9
  CLUS_2              8              152
  CLUS_3              5              115

Clustering(12) Variable = PCDHAC2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        1      0      0
  PCDHAC2 WILD-TYPE      8     10      7
D12V1, multiclass
[1] "Remove cluster labels:" "PCDHAC2 MUTATED"       
clus
  PCDHAC2 MUTATED PCDHAC2 WILD-TYPE 
                1                25 
       TCGA-CS-4942        TCGA-CS-4943        TCGA-CS-4944        TCGA-CS-5390 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-CS-5394        TCGA-CS-5395        TCGA-CS-5396        TCGA-DB-5273 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-DB-5274        TCGA-DB-5275        TCGA-DB-5276        TCGA-DB-5277 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-DB-5278        TCGA-DB-5280        TCGA-DB-5281        TCGA-DH-5140 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-DH-5141        TCGA-DH-5142        TCGA-DH-5143        TCGA-DH-5144 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-E1-5302        TCGA-E1-5303        TCGA-E1-5304        TCGA-E1-5311 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-E1-5318 
"PCDHAC2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHAC2 MUTATED        0      0      1      0
  PCDHAC2 WILD-TYPE      7      5      9      4
D12V2, multiclass
[1] "Remove cluster labels:" "PCDHAC2 MUTATED"       
clus
  PCDHAC2 MUTATED PCDHAC2 WILD-TYPE 
                1                25 
       TCGA-CS-4942        TCGA-CS-4943        TCGA-CS-4944        TCGA-CS-5390 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-CS-5394        TCGA-CS-5395        TCGA-CS-5396        TCGA-DB-5273 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-DB-5274        TCGA-DB-5275        TCGA-DB-5276        TCGA-DB-5277 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-DB-5278        TCGA-DB-5280        TCGA-DB-5281        TCGA-DH-5140 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-DH-5141        TCGA-DH-5142        TCGA-DH-5143        TCGA-DH-5144 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-E1-5302        TCGA-E1-5303        TCGA-E1-5304        TCGA-E1-5311 
"PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" "PCDHAC2 WILD-TYPE" 
       TCGA-E1-5318 
"PCDHAC2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        5      9      3
  PCDHAC2 WILD-TYPE    111     58    100
D12V3, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               5               111
  CLUS_2               9                58
  CLUS_3               3               100
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHAC2 MUTATED        8      5      3      1
  PCDHAC2 WILD-TYPE    123     40     73     32
D12V4, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               8               123
  CLUS_2               5                40
  CLUS_3               3                73
  CLUS_4               1                32
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHAC2 MUTATED        2      3      3      4
  PCDHAC2 WILD-TYPE     50     58     62     69
D12V5, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               2                50
  CLUS_2               3                58
  CLUS_3               3                62
  CLUS_4               4                69
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        1      6      5
  PCDHAC2 WILD-TYPE      7    120    112
D12V6, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               6               120
  CLUS_3               5               112
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCDHAC2 MUTATED        4      4      2      4      1      2
  PCDHAC2 WILD-TYPE     70     54     44     86      6     11
D12V7, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        2      9      6
  PCDHAC2 WILD-TYPE     40    134     97
D12V8, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               9               134
  CLUS_3               6                97
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHAC2 MUTATED        6      5      4      1      1
  PCDHAC2 WILD-TYPE     66     51     93     14     48
D12V9, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        0     12      5
  PCDHAC2 WILD-TYPE      2    148    122
D12V10, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               0                 2
  CLUS_2              12               148
  CLUS_3               5               122
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCDHAC2 MUTATED        4      1      4      4      1      3      0      0
  PCDHAC2 WILD-TYPE     44     45     33     75     28     29      4     14
D12V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        1     12      4
  PCDHAC2 WILD-TYPE      8    148    116
D12V12, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               1                 8
  CLUS_2              12               148
  CLUS_3               4               116

Clustering(13) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      0      1
  PTEN WILD-TYPE      9     10      6
D13V1, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             1             25 
    TCGA-CS-4942     TCGA-CS-4943     TCGA-CS-4944     TCGA-CS-5390 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CS-5394     TCGA-CS-5396     TCGA-DB-5273     TCGA-DB-5274 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DB-5275     TCGA-DB-5276     TCGA-DB-5277     TCGA-DB-5278 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DB-5280     TCGA-DB-5281     TCGA-DH-5140     TCGA-DH-5141 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DH-5142     TCGA-DH-5143     TCGA-DH-5144     TCGA-E1-5302 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5311     TCGA-E1-5318 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-E1-5322 
"PTEN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        0      0      1      0
  PTEN WILD-TYPE      7      5      9      4
D13V2, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             1             25 
    TCGA-CS-4942     TCGA-CS-4943     TCGA-CS-4944     TCGA-CS-5390 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CS-5394     TCGA-CS-5396     TCGA-DB-5273     TCGA-DB-5274 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DB-5275     TCGA-DB-5276     TCGA-DB-5277     TCGA-DB-5278 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DB-5280     TCGA-DB-5281     TCGA-DH-5140     TCGA-DH-5141 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-DH-5142     TCGA-DH-5143     TCGA-DH-5144     TCGA-E1-5302 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-E1-5303     TCGA-E1-5304     TCGA-E1-5311     TCGA-E1-5318 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-E1-5322 
"PTEN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0     13      0
  PTEN WILD-TYPE    116     54    103
D13V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0            116
  CLUS_2           13             54
  CLUS_3            0            103
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        0     12      0      0
  PTEN WILD-TYPE    131     33     76     33
D13V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0            131
  CLUS_2           12             33
  CLUS_3            0             76
  CLUS_4            0             33
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      8      1      0
  PTEN WILD-TYPE     51     53     64     73
D13V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             51
  CLUS_2            8             53
  CLUS_3            1             64
  CLUS_4            0             73
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0     10      0
  PTEN WILD-TYPE      8    116    117
D13V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              8
  CLUS_2           10            116
  CLUS_3            0            117
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        0     12      0      1      0      0
  PTEN WILD-TYPE     74     46     46     89      7     13
D13V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0     13      0
  PTEN WILD-TYPE     42    130    103
D13V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             42
  CLUS_2           13            130
  CLUS_3            0            103
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED        9      3      1      0      0
  PTEN WILD-TYPE     63     53     96     15     49
D13V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0     11      2
  PTEN WILD-TYPE      2    149    125
D13V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              2
  CLUS_2           11            149
  CLUS_3            2            125
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PTEN MUTATED        0     12      0      1      0      0      0      0
  PTEN WILD-TYPE     48     34     37     78     29     32      4     14
D13V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        2     11      0
  PTEN WILD-TYPE      7    149    120
D13V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2              7
  CLUS_2           11            149
  CLUS_3            0            120

Clustering(14) Variable = CREBZF MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBZF MUTATED        0      0      0
  CREBZF WILD-TYPE      9     10      7
D14V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREBZF MUTATED        0      0      0      0
  CREBZF WILD-TYPE      7      5     10      4
D14V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBZF MUTATED        0      1      4
  CREBZF WILD-TYPE    116     66     99
D14V3, multiclass
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  CLUS_1              0              116
  CLUS_2              1               66
  CLUS_3              4               99
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREBZF MUTATED        0      0      4      1
  CREBZF WILD-TYPE    131     45     72     32
D14V4, multiclass
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  CLUS_1              0              131
  CLUS_2              0               45
  CLUS_3              4               72
  CLUS_4              1               32
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREBZF MUTATED        0      1      0      4
  CREBZF WILD-TYPE     52     60     65     69
D14V5, multiclass
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  CLUS_1              0               52
  CLUS_2              1               60
  CLUS_3              0               65
  CLUS_4              4               69
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBZF MUTATED        0      0      5
  CREBZF WILD-TYPE      8    126    112
D14V6, multiclass
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  CLUS_1              0                8
  CLUS_2              0              126
  CLUS_3              5              112
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CREBZF MUTATED        0      1      1      3      0      0
  CREBZF WILD-TYPE     74     57     45     87      7     13
D14V7, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBZF MUTATED        1      1      3
  CREBZF WILD-TYPE     41    142    100
D14V8, multiclass
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1              142
  CLUS_3              3              100
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CREBZF MUTATED        0      1      3      0      1
  CREBZF WILD-TYPE     72     55     94     15     48
D14V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBZF MUTATED        0      1      4
  CREBZF WILD-TYPE      2    159    123
D14V10, multiclass
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  CLUS_1              0                2
  CLUS_2              1              159
  CLUS_3              4              123
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CREBZF MUTATED        0      1      0      3      1      0      0      0
  CREBZF WILD-TYPE     48     45     37     76     28     32      4     14
D14V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBZF MUTATED        0      1      4
  CREBZF WILD-TYPE      9    159    116
D14V12, multiclass
        clus
vv       CREBZF MUTATED CREBZF WILD-TYPE
  CLUS_1              0                9
  CLUS_2              1              159
  CLUS_3              4              116

Clustering(15) Variable = EIF1AX MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        0      0      0
  EIF1AX WILD-TYPE      9     10      7
D15V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF1AX MUTATED        0      0      0      0
  EIF1AX WILD-TYPE      7      5     10      4
D15V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        0      1      3
  EIF1AX WILD-TYPE    116     66    100
D15V3, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0              116
  CLUS_2              1               66
  CLUS_3              3              100
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF1AX MUTATED        4      0      0      0
  EIF1AX WILD-TYPE    127     45     76     33
D15V4, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              4              127
  CLUS_2              0               45
  CLUS_3              0               76
  CLUS_4              0               33
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF1AX MUTATED        0      0      2      2
  EIF1AX WILD-TYPE     52     61     63     71
D15V5, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0               52
  CLUS_2              0               61
  CLUS_3              2               63
  CLUS_4              2               71
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        0      2      2
  EIF1AX WILD-TYPE      8    124    115
D15V6, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0                8
  CLUS_2              2              124
  CLUS_3              2              115
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF1AX MUTATED        2      1      0      1      0      0
  EIF1AX WILD-TYPE     72     57     46     89      7     13
D15V7, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        0      3      1
  EIF1AX WILD-TYPE     42    140    102
D15V8, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3              140
  CLUS_3              1              102
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF1AX MUTATED        2      1      1      0      0
  EIF1AX WILD-TYPE     70     55     96     15     49
D15V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        0      4      0
  EIF1AX WILD-TYPE      2    156    127
D15V10, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0                2
  CLUS_2              4              156
  CLUS_3              0              127
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  EIF1AX MUTATED        2      1      1      0      0      0      0      0
  EIF1AX WILD-TYPE     46     45     36     79     29     32      4     14
D15V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        0      4      0
  EIF1AX WILD-TYPE      9    156    120
D15V12, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0                9
  CLUS_2              4              156
  CLUS_3              0              120

Clustering(16) Variable = HTRA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA2 MUTATED        0      0      0
  HTRA2 WILD-TYPE      9     10      7
D16V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTRA2 MUTATED        0      0      0      0
  HTRA2 WILD-TYPE      7      5     10      4
D16V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA2 MUTATED        3      1      0
  HTRA2 WILD-TYPE    113     66    103
D16V3, multiclass
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  CLUS_1             3             113
  CLUS_2             1              66
  CLUS_3             0             103
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTRA2 MUTATED        2      0      1      1
  HTRA2 WILD-TYPE    129     45     75     32
D16V4, multiclass
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             0              45
  CLUS_3             1              75
  CLUS_4             1              32
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTRA2 MUTATED        2      1      0      1
  HTRA2 WILD-TYPE     50     60     65     72
D16V5, multiclass
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  CLUS_1             2              50
  CLUS_2             1              60
  CLUS_3             0              65
  CLUS_4             1              72
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA2 MUTATED        0      2      2
  HTRA2 WILD-TYPE      8    124    115
D16V6, multiclass
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             2             124
  CLUS_3             2             115
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HTRA2 MUTATED        1      1      1      1      0      0
  HTRA2 WILD-TYPE     73     57     45     89      7     13
D16V7, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA2 MUTATED        1      2      1
  HTRA2 WILD-TYPE     41    141    102
D16V8, multiclass
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2             141
  CLUS_3             1             102
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HTRA2 MUTATED        2      0      1      1      0
  HTRA2 WILD-TYPE     70     56     96     14     49
D16V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA2 MUTATED        0      2      2
  HTRA2 WILD-TYPE      2    158    125
D16V10, multiclass
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  CLUS_1             0               2
  CLUS_2             2             158
  CLUS_3             2             125
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HTRA2 MUTATED        1      1      1      1      0      0      0      0
  HTRA2 WILD-TYPE     47     45     36     78     29     32      4     14
D16V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA2 MUTATED        0      2      2
  HTRA2 WILD-TYPE      9    158    118
D16V12, multiclass
        clus
vv       HTRA2 MUTATED HTRA2 WILD-TYPE
  CLUS_1             0               9
  CLUS_2             2             158
  CLUS_3             2             118

Clustering(17) Variable = VAV3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        0      0      0
  VAV3 WILD-TYPE      9     10      7
D17V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VAV3 MUTATED        0      0      0      0
  VAV3 WILD-TYPE      7      5     10      4
D17V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        5      1      2
  VAV3 WILD-TYPE    111     66    101
D17V3, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            5            111
  CLUS_2            1             66
  CLUS_3            2            101
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VAV3 MUTATED        3      1      2      2
  VAV3 WILD-TYPE    128     44     74     31
D17V4, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            1             44
  CLUS_3            2             74
  CLUS_4            2             31
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VAV3 MUTATED        1      2      2      3
  VAV3 WILD-TYPE     51     59     63     70
D17V5, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            1             51
  CLUS_2            2             59
  CLUS_3            2             63
  CLUS_4            3             70
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        0      3      5
  VAV3 WILD-TYPE      8    123    112
D17V6, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            3            123
  CLUS_3            5            112
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VAV3 MUTATED        0      2      0      4      0      2
  VAV3 WILD-TYPE     74     56     46     86      7     11
D17V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        0      2      6
  VAV3 WILD-TYPE     42    141     97
D17V8, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2            141
  CLUS_3            6             97
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VAV3 MUTATED        2      1      5      0      0
  VAV3 WILD-TYPE     70     55     92     15     49
D17V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        0      3      5
  VAV3 WILD-TYPE      2    157    122
D17V10, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            0              2
  CLUS_2            3            157
  CLUS_3            5            122
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VAV3 MUTATED        1      2      0      3      0      1      0      1
  VAV3 WILD-TYPE     47     44     37     76     29     31      4     13
D17V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VAV3 MUTATED        1      3      4
  VAV3 WILD-TYPE      8    157    116
D17V12, multiclass
        clus
vv       VAV3 MUTATED VAV3 WILD-TYPE
  CLUS_1            1              8
  CLUS_2            3            157
  CLUS_3            4            116

Clustering(18) Variable = TMEM216 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM216 MUTATED        0      0      0
  TMEM216 WILD-TYPE      9     10      7
D18V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM216 MUTATED        0      0      0      0
  TMEM216 WILD-TYPE      7      5     10      4
D18V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM216 MUTATED        1      1      1
  TMEM216 WILD-TYPE    115     66    102
D18V3, multiclass
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  CLUS_1               1               115
  CLUS_2               1                66
  CLUS_3               1               102
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM216 MUTATED        2      0      1      0
  TMEM216 WILD-TYPE    129     45     75     33
D18V4, multiclass
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               0                45
  CLUS_3               1                75
  CLUS_4               0                33
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM216 MUTATED        1      1      0      1
  TMEM216 WILD-TYPE     51     60     65     72
D18V5, multiclass
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  CLUS_1               1                51
  CLUS_2               1                60
  CLUS_3               0                65
  CLUS_4               1                72
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM216 MUTATED        0      1      2
  TMEM216 WILD-TYPE      8    125    115
D18V6, multiclass
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               1               125
  CLUS_3               2               115
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM216 MUTATED        1      0      1      1      0      0
  TMEM216 WILD-TYPE     73     58     45     89      7     13
D18V7, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM216 MUTATED        1      1      1
  TMEM216 WILD-TYPE     41    142    102
D18V8, multiclass
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1               142
  CLUS_3               1               102
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM216 MUTATED        0      1      1      1      0
  TMEM216 WILD-TYPE     72     55     96     14     49
D18V9, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM216 MUTATED        0      1      2
  TMEM216 WILD-TYPE      2    159    125
D18V10, multiclass
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  CLUS_1               0                 2
  CLUS_2               1               159
  CLUS_3               2               125
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TMEM216 MUTATED        0      0      2      1      0      0      0      0
  TMEM216 WILD-TYPE     48     46     35     78     29     32      4     14
D18V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM216 MUTATED        0      1      2
  TMEM216 WILD-TYPE      9    159    118
D18V12, multiclass
        clus
vv       TMEM216 MUTATED TMEM216 WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               1               159
  CLUS_3               2               118

Clustering(19) Variable = SPANXE MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXE MUTATED        0      0      0
  SPANXE WILD-TYPE      9     10      7
D19V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPANXE MUTATED        0      0      0      0
  SPANXE WILD-TYPE      7      5     10      4
D19V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXE MUTATED        1      0      3
  SPANXE WILD-TYPE    115     67    100
D19V3, multiclass
        clus
vv       SPANXE MUTATED SPANXE WILD-TYPE
  CLUS_1              1              115
  CLUS_2              0               67
  CLUS_3              3              100
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPANXE MUTATED        2      0      2      0
  SPANXE WILD-TYPE    129     45     74     33
D19V4, multiclass
        clus
vv       SPANXE MUTATED SPANXE WILD-TYPE
  CLUS_1              2              129
  CLUS_2              0               45
  CLUS_3              2               74
  CLUS_4              0               33
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPANXE MUTATED        2      1      1      0
  SPANXE WILD-TYPE     50     60     64     73
D19V5, multiclass
        clus
vv       SPANXE MUTATED SPANXE WILD-TYPE
  CLUS_1              2               50
  CLUS_2              1               60
  CLUS_3              1               64
  CLUS_4              0               73
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXE MUTATED        0      2      2
  SPANXE WILD-TYPE      8    124    115
D19V6, multiclass
        clus
vv       SPANXE MUTATED SPANXE WILD-TYPE
  CLUS_1              0                8
  CLUS_2              2              124
  CLUS_3              2              115
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPANXE MUTATED        2      0      1      1      0      0
  SPANXE WILD-TYPE     72     58     45     89      7     13
D19V7, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXE MUTATED        1      2      1
  SPANXE WILD-TYPE     41    141    102
D19V8, multiclass
        clus
vv       SPANXE MUTATED SPANXE WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2              141
  CLUS_3              1              102
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPANXE MUTATED        1      1      2      0      0
  SPANXE WILD-TYPE     71     55     95     15     49
D19V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXE MUTATED        0      2      2
  SPANXE WILD-TYPE      2    158    125
D19V10, multiclass
        clus
vv       SPANXE MUTATED SPANXE WILD-TYPE
  CLUS_1              0                2
  CLUS_2              2              158
  CLUS_3              2              125
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SPANXE MUTATED        1      0      0      1      0      1      1      0
  SPANXE WILD-TYPE     47     46     37     78     29     31      3     14
D19V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SPANXE MUTATED        0      2      2
  SPANXE WILD-TYPE      9    158    118
D19V12, multiclass
        clus
vv       SPANXE MUTATED SPANXE WILD-TYPE
  CLUS_1              0                9
  CLUS_2              2              158
  CLUS_3              2              118

Clustering(20) Variable = TCF12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TCF12 MUTATED        0      0      0
  TCF12 WILD-TYPE      9     10      7
D20V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF12 MUTATED        0      0      0      0
  TCF12 WILD-TYPE      7      5     10      4
D20V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TCF12 MUTATED        2      1      5
  TCF12 WILD-TYPE    114     66     98
D20V3, multiclass
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  CLUS_1             2             114
  CLUS_2             1              66
  CLUS_3             5              98
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF12 MUTATED        3      1      4      0
  TCF12 WILD-TYPE    128     44     72     33
D20V4, multiclass
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             1              44
  CLUS_3             4              72
  CLUS_4             0              33
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF12 MUTATED        1      1      5      1
  TCF12 WILD-TYPE     51     60     60     72
D20V5, multiclass
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  CLUS_1             1              51
  CLUS_2             1              60
  CLUS_3             5              60
  CLUS_4             1              72
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TCF12 MUTATED        1      5      2
  TCF12 WILD-TYPE      7    121    115
D20V6, multiclass
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  CLUS_1             1               7
  CLUS_2             5             121
  CLUS_3             2             115
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TCF12 MUTATED        1      2      3      2      0      0
  TCF12 WILD-TYPE     73     56     43     88      7     13
D20V7, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TCF12 MUTATED        2      3      3
  TCF12 WILD-TYPE     40    140    100
D20V8, multiclass
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3             140
  CLUS_3             3             100
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCF12 MUTATED        2      0      3      2      1
  TCF12 WILD-TYPE     70     56     94     13     48
D20V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TCF12 MUTATED        0      4      4
  TCF12 WILD-TYPE      2    156    123
D20V10, multiclass
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  CLUS_1             0               2
  CLUS_2             4             156
  CLUS_3             4             123
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCF12 MUTATED        2      1      0      3      2      0      0      0
  TCF12 WILD-TYPE     46     45     37     76     27     32      4     14
D20V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TCF12 MUTATED        0      4      4
  TCF12 WILD-TYPE      9    156    116
D20V12, multiclass
        clus
vv       TCF12 MUTATED TCF12 WILD-TYPE
  CLUS_1             0               9
  CLUS_2             4             156
  CLUS_3             4             116

Clustering(21) Variable = SMARCA4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        0      0      0
  SMARCA4 WILD-TYPE      9     10      7
D21V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCA4 MUTATED        0      0      0      0
  SMARCA4 WILD-TYPE      7      5     10      4
D21V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        9      1      3
  SMARCA4 WILD-TYPE    107     66    100
D21V3, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               9               107
  CLUS_2               1                66
  CLUS_3               3               100
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCA4 MUTATED        9      0      4      0
  SMARCA4 WILD-TYPE    122     45     72     33
D21V4, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               9               122
  CLUS_2               0                45
  CLUS_3               4                72
  CLUS_4               0                33
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCA4 MUTATED        0      3      4      4
  SMARCA4 WILD-TYPE     52     58     61     69
D21V5, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                52
  CLUS_2               3                58
  CLUS_3               4                61
  CLUS_4               4                69
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        0      6      5
  SMARCA4 WILD-TYPE      8    120    112
D21V6, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               6               120
  CLUS_3               5               112
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMARCA4 MUTATED        3      0      3      5      1      1
  SMARCA4 WILD-TYPE     71     58     43     85      6     12
D21V7, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        3      5      5
  SMARCA4 WILD-TYPE     39    138     98
D21V8, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               5               138
  CLUS_3               5                98
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMARCA4 MUTATED        2      0      6      2      3
  SMARCA4 WILD-TYPE     70     56     91     13     46
D21V9, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        0      5      8
  SMARCA4 WILD-TYPE      2    155    119
D21V10, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                 2
  CLUS_2               5               155
  CLUS_3               8               119
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMARCA4 MUTATED        3      0      1      5      4      0      0      0
  SMARCA4 WILD-TYPE     45     46     36     74     25     32      4     14
D21V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        0      5      8
  SMARCA4 WILD-TYPE      9    155    112
D21V12, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               5               155
  CLUS_3               8               112

Clustering(22) Variable = NF1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        0      1      0
  NF1 WILD-TYPE      9      9      7
D22V1, multiclass
[1] "Remove cluster labels:" "NF1 MUTATED"           
clus
  NF1 MUTATED NF1 WILD-TYPE 
            1            25 
   TCGA-CS-4942    TCGA-CS-4943    TCGA-CS-4944    TCGA-CS-5390    TCGA-CS-5394 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-CS-5395    TCGA-CS-5396    TCGA-DB-5273    TCGA-DB-5274    TCGA-DB-5275 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-DB-5276    TCGA-DB-5277    TCGA-DB-5278    TCGA-DB-5280    TCGA-DB-5281 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-DH-5141    TCGA-DH-5142    TCGA-DH-5143    TCGA-DH-5144    TCGA-E1-5302 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-E1-5303    TCGA-E1-5304    TCGA-E1-5311    TCGA-E1-5318    TCGA-E1-5322 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED        0      0      0      1
  NF1 WILD-TYPE      7      5     10      3
D22V2, multiclass
[1] "Remove cluster labels:" "NF1 MUTATED"           
clus
  NF1 MUTATED NF1 WILD-TYPE 
            1            25 
   TCGA-CS-4942    TCGA-CS-4943    TCGA-CS-4944    TCGA-CS-5390    TCGA-CS-5394 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-CS-5395    TCGA-CS-5396    TCGA-DB-5273    TCGA-DB-5274    TCGA-DB-5275 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-DB-5276    TCGA-DB-5277    TCGA-DB-5278    TCGA-DB-5280    TCGA-DB-5281 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-DH-5141    TCGA-DH-5142    TCGA-DH-5143    TCGA-DH-5144    TCGA-E1-5302 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-E1-5303    TCGA-E1-5304    TCGA-E1-5311    TCGA-E1-5318    TCGA-E1-5322 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        4     10      5
  NF1 WILD-TYPE    112     57     98
D22V3, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           4           112
  CLUS_2          10            57
  CLUS_3           5            98
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED        1     10      1      3
  NF1 WILD-TYPE    130     35     75     30
D22V4, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           1           130
  CLUS_2          10            35
  CLUS_3           1            75
  CLUS_4           3            30
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED        1      9      2      4
  NF1 WILD-TYPE     51     52     63     69
D22V5, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           1            51
  CLUS_2           9            52
  CLUS_3           2            63
  CLUS_4           4            69
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        0     11      5
  NF1 WILD-TYPE      8    115    112
D22V6, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           0             8
  CLUS_2          11           115
  CLUS_3           5           112
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF1 MUTATED        1     10      3      5      0      0
  NF1 WILD-TYPE     73     48     43     85      7     13
D22V7, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        2     10      7
  NF1 WILD-TYPE     40    133     96
D22V8, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           2            40
  CLUS_2          10           133
  CLUS_3           7            96
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF1 MUTATED        6      5      4      1      3
  NF1 WILD-TYPE     66     51     93     14     46
D22V9, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        0     12      7
  NF1 WILD-TYPE      2    148    120
D22V10, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           0             2
  CLUS_2          12           148
  CLUS_3           7           120
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NF1 MUTATED        1      9      1      3      0      5      0      0
  NF1 WILD-TYPE     47     37     36     76     29     27      4     14
D22V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        3     13      3
  NF1 WILD-TYPE      6    147    117
D22V12, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           3             6
  CLUS_2          13           147
  CLUS_3           3           117

Clustering(23) Variable = BCOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        1      1      1
  BCOR WILD-TYPE      8      9      6
D23V1, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1              8
  CLUS_2            1              9
  CLUS_3            1              6
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        1      1      1      0
  BCOR WILD-TYPE      6      4      9      4
D23V2, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1              6
  CLUS_2            1              4
  CLUS_3            1              9
  CLUS_4            0              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        2      3      4
  BCOR WILD-TYPE    114     64     99
D23V3, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2            114
  CLUS_2            3             64
  CLUS_3            4             99
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        3      1      4      1
  BCOR WILD-TYPE    128     44     72     32
D23V4, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            3            128
  CLUS_2            1             44
  CLUS_3            4             72
  CLUS_4            1             32
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        2      2      1      2
  BCOR WILD-TYPE     50     59     64     71
D23V5, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             50
  CLUS_2            2             59
  CLUS_3            1             64
  CLUS_4            2             71
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        0      3      4
  BCOR WILD-TYPE      8    123    113
D23V6, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0              8
  CLUS_2            3            123
  CLUS_3            4            113
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCOR MUTATED        2      0      2      4      1      0
  BCOR WILD-TYPE     72     58     44     86      6     13
D23V7, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        2      3      4
  BCOR WILD-TYPE     40    140     99
D23V8, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3            140
  CLUS_3            4             99
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCOR MUTATED        3      1      4      0      1
  BCOR WILD-TYPE     69     55     93     15     48
D23V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        0      3      6
  BCOR WILD-TYPE      2    157    121
D23V10, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0              2
  CLUS_2            3            157
  CLUS_3            6            121
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCOR MUTATED        0      0      3      3      1      1      0      1
  BCOR WILD-TYPE     48     46     34     76     28     31      4     13
D23V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        1      4      4
  BCOR WILD-TYPE      8    156    116
D23V12, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1              8
  CLUS_2            4            156
  CLUS_3            4            116
> q(save="no")
