
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/UCS-TP/6165970/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UCS-TP/6185325/UCS-TP.transferedmergedcluster.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=UCS-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=UCS-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/UCS-TP/6185325/UCS-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/UCS-TP/6165970/transformed.cor.cli.txt"

nPatients in clinical file=57, in cluster file=56, common to both=56
[1]  9 56
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             21              35 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             21              35 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
             7             49 
  KRAS MUTATED KRAS WILD-TYPE 
             7             49 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            50              6 
  TP53 MUTATED TP53 WILD-TYPE 
            50              6 
[1] "PPP2R1A MUTATION ANALYSIS"
[1] 3
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               15                41 
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               15                41 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              19               37 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              19               37 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            10             46 
  PTEN MUTATED PTEN WILD-TYPE 
            10             46 
[1] "PCDHAC2 MUTATION ANALYSIS"
[1] 3
  PCDHAC2 MUTATED PCDHAC2 WILD-TYPE 
               11                45 
  PCDHAC2 MUTATED PCDHAC2 WILD-TYPE 
               11                45 
[1] "PIK3R1 MUTATION ANALYSIS"
[1] 3
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
               6               50 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
               6               50 
[1] "ZBTB7B MUTATION ANALYSIS"
[1] 3
  ZBTB7B MUTATED ZBTB7B WILD-TYPE 
               6               50 
  ZBTB7B MUTATED ZBTB7B WILD-TYPE 
               6               50 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
[1] "CN_CNMF"                     "METHLYATION_CNMF"           
[3] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[5] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[7] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 8 rows and 56 columns.

Variable 1:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MIRSEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"                     "METHLYATION_CNMF"           
[3] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[5] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[7] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 56 columns, 0 survival variables, and 8 non-survival variables.
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       12      8      1
  FBXW7 WILD-TYPE     10     15      9
D1V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            12              10
  CLUS_2             8              15
  CLUS_3             1               9
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXW7 MUTATED        6      4      3      3      5
  FBXW7 WILD-TYPE      6      5      6     10      8
D1V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        8      7      6
  FBXW7 WILD-TYPE      9     13     12
D1V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             8               9
  CLUS_2             7              13
  CLUS_3             6              12
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXW7 MUTATED        1      1      8      4      7
  FBXW7 WILD-TYPE      3      2      7      8     14
D1V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        5      8      3      5
  FBXW7 WILD-TYPE      6     14      1     13
D1V5, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             5               6
  CLUS_2             8              14
  CLUS_3             3               1
  CLUS_4             5              13
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        0     10     11
  FBXW7 WILD-TYPE      1     16     17
D1V6, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0               1
  CLUS_2            10              16
  CLUS_3            11              17
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        5      9      2      5
  FBXW7 WILD-TYPE      6     14      3     11
D1V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             5               6
  CLUS_2             9              14
  CLUS_3             2               3
  CLUS_4             5              11
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        0     11     10
  FBXW7 WILD-TYPE      1     14     19
D1V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0               1
  CLUS_2            11              14
  CLUS_3            10              19

Clustering(2) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        2      5      0
  KRAS WILD-TYPE     20     18     10
D2V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2             20
  CLUS_2            5             18
  CLUS_3            0             10
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        0      1      1      0      5
  KRAS WILD-TYPE     12      8      8     13      8
D2V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      3      4
  KRAS WILD-TYPE     17     17     14
D2V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0             17
  CLUS_2            3             17
  CLUS_3            4             14
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        0      0      0      4      3
  KRAS WILD-TYPE      4      3     15      8     18
D2V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        1      4      1      1
  KRAS WILD-TYPE     10     18      3     17
D2V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            1             10
  CLUS_2            4             18
  CLUS_3            1              3
  CLUS_4            1             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      2      5
  KRAS WILD-TYPE      1     24     23
D2V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0              1
  CLUS_2            2             24
  CLUS_3            5             23
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        1      5      0      1
  KRAS WILD-TYPE     10     18      5     15
D2V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            1             10
  CLUS_2            5             18
  CLUS_3            0              5
  CLUS_4            1             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      5      2
  KRAS WILD-TYPE      1     20     27
D2V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0              1
  CLUS_2            5             20
  CLUS_3            2             27

Clustering(3) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       21     20      8
  TP53 WILD-TYPE      1      3      2
D3V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           21              1
  CLUS_2           20              3
  CLUS_3            8              2
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       12      8      7     12     11
  TP53 WILD-TYPE      0      1      2      1      2
D3V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       15     18     16
  TP53 WILD-TYPE      2      2      2
D3V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           15              2
  CLUS_2           18              2
  CLUS_3           16              2
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED        3      3     14     10     19
  TP53 WILD-TYPE      1      0      1      2      2
D3V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       10     20      4     16
  TP53 WILD-TYPE      1      2      0      2
D3V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           10              1
  CLUS_2           20              2
  CLUS_3            4              0
  CLUS_4           16              2
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        1     23     26
  TP53 WILD-TYPE      0      3      2
D3V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1              0
  CLUS_2           23              3
  CLUS_3           26              2
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       10     21      5     14
  TP53 WILD-TYPE      1      2      0      2
D3V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           10              1
  CLUS_2           21              2
  CLUS_3            5              0
  CLUS_4           14              2
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        1     23     26
  TP53 WILD-TYPE      0      2      3
D3V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1              0
  CLUS_2           23              2
  CLUS_3           26              3

Clustering(4) Variable = PPP2R1A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        6      6      3
  PPP2R1A WILD-TYPE     16     17      7
D4V1, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               6                16
  CLUS_2               6                17
  CLUS_3               3                 7
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R1A MUTATED        4      3      3      3      2
  PPP2R1A WILD-TYPE      8      6      6     10     11
D4V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        6      5      4
  PPP2R1A WILD-TYPE     11     15     14
D4V3, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               6                11
  CLUS_2               5                15
  CLUS_3               4                14
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R1A MUTATED        1      1      5      3      5
  PPP2R1A WILD-TYPE      3      2     10      9     16
D4V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R1A MUTATED        5      5      1      4
  PPP2R1A WILD-TYPE      6     17      3     14
D4V5, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               5                 6
  CLUS_2               5                17
  CLUS_3               1                 3
  CLUS_4               4                14
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        0      8      7
  PPP2R1A WILD-TYPE      1     18     21
D4V6, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               8                18
  CLUS_3               7                21
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R1A MUTATED        6      5      1      3
  PPP2R1A WILD-TYPE      5     18      4     13
D4V7, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               6                 5
  CLUS_2               5                18
  CLUS_3               1                 4
  CLUS_4               3                13
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        0      7      8
  PPP2R1A WILD-TYPE      1     18     21
D4V8, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               7                18
  CLUS_3               8                21

Clustering(5) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        5     10      3
  PIK3CA WILD-TYPE     17     13      7
D5V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5               17
  CLUS_2             10               13
  CLUS_3              3                7
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        4      3      4      4      4
  PIK3CA WILD-TYPE      8      6      5      9      9
D5V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        6      9      4
  PIK3CA WILD-TYPE     11     11     14
D5V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6               11
  CLUS_2              9               11
  CLUS_3              4               14
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        1      0      6      3      9
  PIK3CA WILD-TYPE      3      3      9      9     12
D5V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        4      4      2      9
  PIK3CA WILD-TYPE      7     18      2      9
D5V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4                7
  CLUS_2              4               18
  CLUS_3              2                2
  CLUS_4              9                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        1     12      6
  PIK3CA WILD-TYPE      0     14     22
D5V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1                0
  CLUS_2             12               14
  CLUS_3              6               22
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        5      5      1      8
  PIK3CA WILD-TYPE      6     18      4      8
D5V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5                6
  CLUS_2              5               18
  CLUS_3              1                4
  CLUS_4              8                8
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        1      5     13
  PIK3CA WILD-TYPE      0     20     16
D5V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1                0
  CLUS_2              5               20
  CLUS_3             13               16

Clustering(6) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      8      1
  PTEN WILD-TYPE     21     15      9
D6V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             21
  CLUS_2            8             15
  CLUS_3            1              9
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED        0      0      5      5      0
  PTEN WILD-TYPE     12      9      4      8     13
D6V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      8      1
  PTEN WILD-TYPE     16     12     17
D6V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             16
  CLUS_2            8             12
  CLUS_3            1             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED        3      0      0      0      7
  PTEN WILD-TYPE      1      3     15     12     14
D6V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        2      1      1      5
  PTEN WILD-TYPE      9     21      3     13
D6V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2              9
  CLUS_2            1             21
  CLUS_3            1              3
  CLUS_4            5             13
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      8      1
  PTEN WILD-TYPE      1     18     27
D6V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              1
  CLUS_2            8             18
  CLUS_3            1             27
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      1      2      5
  PTEN WILD-TYPE     10     22      3     11
D6V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1             22
  CLUS_3            2              3
  CLUS_4            5             11
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      1      8
  PTEN WILD-TYPE      1     24     21
D6V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              1
  CLUS_2            1             24
  CLUS_3            8             21

Clustering(7) Variable = PCDHAC2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        2      7      1
  PCDHAC2 WILD-TYPE     20     16      9
D7V1, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               2                20
  CLUS_2               7                16
  CLUS_3               1                 9
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHAC2 MUTATED        3      0      4      1      3
  PCDHAC2 WILD-TYPE      9      9      5     12     10
D7V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        4      5      2
  PCDHAC2 WILD-TYPE     13     15     16
D7V3, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               4                13
  CLUS_2               5                15
  CLUS_3               2                16
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCDHAC2 MUTATED        1      0      3      2      5
  PCDHAC2 WILD-TYPE      3      3     12     10     16
D7V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHAC2 MUTATED        2      3      0      5
  PCDHAC2 WILD-TYPE      9     19      4     13
D7V5, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               3                19
  CLUS_3               0                 4
  CLUS_4               5                13
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        0      6      4
  PCDHAC2 WILD-TYPE      1     20     24
D7V6, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               6                20
  CLUS_3               4                24
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHAC2 MUTATED        2      3      0      5
  PCDHAC2 WILD-TYPE      9     20      5     11
D7V7, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               3                20
  CLUS_3               0                 5
  CLUS_4               5                11
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHAC2 MUTATED        0      3      7
  PCDHAC2 WILD-TYPE      1     22     22
D7V8, multiclass
        clus
vv       PCDHAC2 MUTATED PCDHAC2 WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               3                22
  CLUS_3               7                22

Clustering(8) Variable = PIK3R1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        3      2      1
  PIK3R1 WILD-TYPE     19     21      9
D8V1, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3               19
  CLUS_2              2               21
  CLUS_3              1                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R1 MUTATED        2      1      1      1      1
  PIK3R1 WILD-TYPE     10      8      8     12     12
D8V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        3      2      1
  PIK3R1 WILD-TYPE     14     18     17
D8V3, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3               14
  CLUS_2              2               18
  CLUS_3              1               17
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R1 MUTATED        0      0      3      1      2
  PIK3R1 WILD-TYPE      4      3     12     11     19
D8V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        2      2      1      1
  PIK3R1 WILD-TYPE      9     20      3     17
D8V5, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              2               20
  CLUS_3              1                3
  CLUS_4              1               17
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        0      2      4
  PIK3R1 WILD-TYPE      1     24     24
D8V6, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              0                1
  CLUS_2              2               24
  CLUS_3              4               24
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        2      3      0      1
  PIK3R1 WILD-TYPE      9     20      5     15
D8V7, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              3               20
  CLUS_3              0                5
  CLUS_4              1               15
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        0      4      2
  PIK3R1 WILD-TYPE      1     21     27
D8V8, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              0                1
  CLUS_2              4               21
  CLUS_3              2               27

Clustering(9) Variable = ZBTB7B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7B MUTATED        3      1      1
  ZBTB7B WILD-TYPE     19     22      9
D9V1, multiclass
        clus
vv       ZBTB7B MUTATED ZBTB7B WILD-TYPE
  CLUS_1              3               19
  CLUS_2              1               22
  CLUS_3              1                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB7B MUTATED        2      1      1      1      1
  ZBTB7B WILD-TYPE     10      8      8     12     12
D9V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7B MUTATED        2      2      2
  ZBTB7B WILD-TYPE     15     18     16
D9V3, multiclass
        clus
vv       ZBTB7B MUTATED ZBTB7B WILD-TYPE
  CLUS_1              2               15
  CLUS_2              2               18
  CLUS_3              2               16
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB7B MUTATED        1      0      2      1      2
  ZBTB7B WILD-TYPE      3      3     13     11     19
D9V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB7B MUTATED        1      1      2      2
  ZBTB7B WILD-TYPE     10     21      2     16
D9V5, multiclass
        clus
vv       ZBTB7B MUTATED ZBTB7B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1               21
  CLUS_3              2                2
  CLUS_4              2               16
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7B MUTATED        0      5      1
  ZBTB7B WILD-TYPE      1     21     27
D9V6, multiclass
        clus
vv       ZBTB7B MUTATED ZBTB7B WILD-TYPE
  CLUS_1              0                1
  CLUS_2              5               21
  CLUS_3              1               27
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB7B MUTATED        1      1      2      2
  ZBTB7B WILD-TYPE     10     22      3     14
D9V7, multiclass
        clus
vv       ZBTB7B MUTATED ZBTB7B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              1               22
  CLUS_3              2                3
  CLUS_4              2               14
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZBTB7B MUTATED        0      1      5
  ZBTB7B WILD-TYPE      1     24     24
D9V8, multiclass
        clus
vv       ZBTB7B MUTATED ZBTB7B WILD-TYPE
  CLUS_1              0                1
  CLUS_2              1               24
  CLUS_3              5               24
> q(save="no")
