
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/ACC-TP/6225241/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/ACC-TP/6159636/ACC-TP.transferedmergedcluster.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=ACC-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=ACC-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/ACC-TP/6159636/ACC-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ACC-TP/6225241/transformed.cor.cli.txt"

nPatients in clinical file=92, in cluster file=90, common to both=90
[1] "Reduce the number of clustering variables from 10 to 9."
[1]  9 90
[1] "CTNNB1 MUTATION ANALYSIS"
[1] 3
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              13               77 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              13               77 
[1] "MUC5B MUTATION ANALYSIS"
[1] 3
  MUC5B MUTATED MUC5B WILD-TYPE 
             16              74 
  MUC5B MUTATED MUC5B WILD-TYPE 
             16              74 
[1] "CRIPAK MUTATION ANALYSIS"
[1] 3
  CRIPAK MUTATED CRIPAK WILD-TYPE 
              11               79 
  CRIPAK MUTATED CRIPAK WILD-TYPE 
              11               79 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            15             75 
  TP53 MUTATED TP53 WILD-TYPE 
            15             75 
[1] "MEN1 MUTATION ANALYSIS"
[1] 3
  MEN1 MUTATED MEN1 WILD-TYPE 
             7             83 
  MEN1 MUTATED MEN1 WILD-TYPE 
             7             83 
[1] "PRKAR1A MUTATION ANALYSIS"
[1] 3
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
                6                84 
  PRKAR1A MUTATED PRKAR1A WILD-TYPE 
                6                84 
[1] "KRTAP4-5 MUTATION ANALYSIS"
[1] 3
  KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE 
                 4                 86 
  KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE 
                 4                 86 
[1] "ATN1 MUTATION ANALYSIS"
[1] 3
  ATN1 MUTATED ATN1 WILD-TYPE 
             4             86 
  ATN1 MUTATED ATN1 WILD-TYPE 
             4             86 
[1] "DMKN MUTATION ANALYSIS"
[1] 3
  DMKN MUTATED DMKN WILD-TYPE 
             3             87 
  DMKN MUTATED DMKN WILD-TYPE 
             3             87 
[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 90 columns.

Variable 1:'CN_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"                     "METHLYATION_CNMF"           
[3] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[5] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[7] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 90 columns, 0 survival variables, and 8 non-survival variables.
CN_CNMF, nv=5, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = CTNNB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED        6      2      3      2      0
  CTNNB1 WILD-TYPE     25     21     12      8      9
D1V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED        4      4      2      0      2
  CTNNB1 WILD-TYPE     13      7     19     18      9
D1V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        7      5      0      0
  CTNNB1 WILD-TYPE     16      9     17     23
D1V3, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              7               16
  CLUS_2              5                9
  CLUS_3              0               17
  CLUS_4              0               23
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        9      0      3
  CTNNB1 WILD-TYPE     13     32     20
D1V4, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              9               13
  CLUS_2              0               32
  CLUS_3              3               20
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        5      7      0
  CTNNB1 WILD-TYPE     32      9     25
D1V5, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              5               32
  CLUS_2              7                9
  CLUS_3              0               25
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        4      0      8
  CTNNB1 WILD-TYPE     22      9     35
D1V6, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4               22
  CLUS_2              0                9
  CLUS_3              8               35
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        6      6      0
  CTNNB1 WILD-TYPE     32     12     22
D1V7, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              6               32
  CLUS_2              6               12
  CLUS_3              0               22
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        8      0      4
  CTNNB1 WILD-TYPE     33     10     23
D1V8, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              8               33
  CLUS_2              0               10
  CLUS_3              4               23

Clustering(2) Variable = MUC5B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC5B MUTATED        4      4      1      3      4
  MUC5B WILD-TYPE     27     19     14      7      5
D2V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC5B MUTATED        2      2      3      3      5
  MUC5B WILD-TYPE     15      9     18     15      6
D2V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC5B MUTATED        3      1      6      5
  MUC5B WILD-TYPE     20     13     11     18
D2V3, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             3              20
  CLUS_2             1              13
  CLUS_3             6              11
  CLUS_4             5              18
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        2      8      5
  MUC5B WILD-TYPE     20     24     18
D2V4, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             2              20
  CLUS_2             8              24
  CLUS_3             5              18
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        5      2      8
  MUC5B WILD-TYPE     32     14     17
D2V5, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              32
  CLUS_2             2              14
  CLUS_3             8              17
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        7      2      6
  MUC5B WILD-TYPE     19      7     37
D2V6, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             7              19
  CLUS_2             2               7
  CLUS_3             6              37
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        5      4      6
  MUC5B WILD-TYPE     33     14     16
D2V7, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              33
  CLUS_2             4              14
  CLUS_3             6              16
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        6      2      7
  MUC5B WILD-TYPE     35      8     20
D2V8, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             6              35
  CLUS_2             2               8
  CLUS_3             7              20

Clustering(3) Variable = CRIPAK MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        3      3      0      4      1
  CRIPAK WILD-TYPE     28     20     15      6      8
D3V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        3      2      1      1      2
  CRIPAK WILD-TYPE     14      9     20     17      9
D3V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRIPAK MUTATED        5      0      2      2
  CRIPAK WILD-TYPE     18     14     15     21
D3V3, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              5               18
  CLUS_2              0               14
  CLUS_3              2               15
  CLUS_4              2               21
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        5      3      1
  CRIPAK WILD-TYPE     17     29     22
D3V4, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              5               17
  CLUS_2              3               29
  CLUS_3              1               22
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        6      1      2
  CRIPAK WILD-TYPE     31     15     23
D3V5, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              6               31
  CLUS_2              1               15
  CLUS_3              2               23
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        3      0      6
  CRIPAK WILD-TYPE     23      9     37
D3V6, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              3               23
  CLUS_2              0                9
  CLUS_3              6               37
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        6      1      2
  CRIPAK WILD-TYPE     32     17     20
D3V7, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              6               32
  CLUS_2              1               17
  CLUS_3              2               20
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        6      0      3
  CRIPAK WILD-TYPE     35     10     24
D3V8, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              6               35
  CLUS_2              0               10
  CLUS_3              3               24

Clustering(4) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED        5      0      4      5      1
  TP53 WILD-TYPE     26     23     11      5      8
D4V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED        3      3      5      1      1
  TP53 WILD-TYPE     14      8     16     17     10
D4V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        4      3      6      0
  TP53 WILD-TYPE     19     11     11     23
D4V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            4             19
  CLUS_2            3             11
  CLUS_3            6             11
  CLUS_4            0             23
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        5      2      6
  TP53 WILD-TYPE     17     30     17
D4V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            5             17
  CLUS_2            2             30
  CLUS_3            6             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        9      4      0
  TP53 WILD-TYPE     28     12     25
D4V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            9             28
  CLUS_2            4             12
  CLUS_3            0             25
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        2      0     11
  TP53 WILD-TYPE     24      9     32
D4V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2             24
  CLUS_2            0              9
  CLUS_3           11             32
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        9      4      0
  TP53 WILD-TYPE     29     14     22
D4V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            9             29
  CLUS_2            4             14
  CLUS_3            0             22
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       11      0      2
  TP53 WILD-TYPE     30     10     25
D4V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           11             30
  CLUS_2            0             10
  CLUS_3            2             25

Clustering(5) Variable = MEN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEN1 MUTATED        1      1      1      2      1
  MEN1 WILD-TYPE     30     22     14      8      8
D5V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MEN1 MUTATED        0      3      4      0      0
  MEN1 WILD-TYPE     17      8     17     18     11
D5V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MEN1 MUTATED        1      2      3      1
  MEN1 WILD-TYPE     22     12     14     22
D5V3, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            1             22
  CLUS_2            2             12
  CLUS_3            3             14
  CLUS_4            1             22
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        1      1      5
  MEN1 WILD-TYPE     21     31     18
D5V4, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            1             21
  CLUS_2            1             31
  CLUS_3            5             18
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        4      2      1
  MEN1 WILD-TYPE     33     14     24
D5V5, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            4             33
  CLUS_2            2             14
  CLUS_3            1             24
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        1      1      5
  MEN1 WILD-TYPE     25      8     38
D5V6, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            1             25
  CLUS_2            1              8
  CLUS_3            5             38
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        4      2      1
  MEN1 WILD-TYPE     34     16     21
D5V7, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            4             34
  CLUS_2            2             16
  CLUS_3            1             21
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEN1 MUTATED        5      1      1
  MEN1 WILD-TYPE     36      9     26
D5V8, multiclass
        clus
vv       MEN1 MUTATED MEN1 WILD-TYPE
  CLUS_1            5             36
  CLUS_2            1              9
  CLUS_3            1             26

Clustering(6) Variable = PRKAR1A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKAR1A MUTATED        2      1      1      1      1
  PRKAR1A WILD-TYPE     29     22     14      9      8
D6V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKAR1A MUTATED        1      1      1      1      2
  PRKAR1A WILD-TYPE     16     10     20     17      9
D6V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKAR1A MUTATED        2      1      3      0
  PRKAR1A WILD-TYPE     21     13     14     23
D6V3, multiclass
        clus
vv       PRKAR1A MUTATED PRKAR1A WILD-TYPE
  CLUS_1               2                21
  CLUS_2               1                13
  CLUS_3               3                14
  CLUS_4               0                23
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1A MUTATED        1      3      2
  PRKAR1A WILD-TYPE     21     29     21
D6V4, multiclass
        clus
vv       PRKAR1A MUTATED PRKAR1A WILD-TYPE
  CLUS_1               1                21
  CLUS_2               3                29
  CLUS_3               2                21
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1A MUTATED        4      1      1
  PRKAR1A WILD-TYPE     33     15     24
D6V5, multiclass
        clus
vv       PRKAR1A MUTATED PRKAR1A WILD-TYPE
  CLUS_1               4                33
  CLUS_2               1                15
  CLUS_3               1                24
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1A MUTATED        2      0      4
  PRKAR1A WILD-TYPE     24      9     39
D6V6, multiclass
        clus
vv       PRKAR1A MUTATED PRKAR1A WILD-TYPE
  CLUS_1               2                24
  CLUS_2               0                 9
  CLUS_3               4                39
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1A MUTATED        4      2      0
  PRKAR1A WILD-TYPE     34     16     22
D6V7, multiclass
        clus
vv       PRKAR1A MUTATED PRKAR1A WILD-TYPE
  CLUS_1               4                34
  CLUS_2               2                16
  CLUS_3               0                22
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1A MUTATED        4      0      2
  PRKAR1A WILD-TYPE     37     10     25
D6V8, multiclass
        clus
vv       PRKAR1A MUTATED PRKAR1A WILD-TYPE
  CLUS_1               4                37
  CLUS_2               0                10
  CLUS_3               2                25

Clustering(7) Variable = KRTAP4-5 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP4-5 MUTATED        1      2      0      0      1
  KRTAP4-5 WILD-TYPE     30     21     15     10      8
D7V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP4-5 MUTATED        0      3      0      0      0
  KRTAP4-5 WILD-TYPE     17      8     21     18     11
D7V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP4-5 MUTATED        1      0      1      1
  KRTAP4-5 WILD-TYPE     22     14     16     22
D7V3, multiclass
        clus
vv       KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE
  CLUS_1                1                 22
  CLUS_2                0                 14
  CLUS_3                1                 16
  CLUS_4                1                 22
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP4-5 MUTATED        1      1      1
  KRTAP4-5 WILD-TYPE     21     31     22
D7V4, multiclass
        clus
vv       KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                1                 31
  CLUS_3                1                 22
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP4-5 MUTATED        1      1      1
  KRTAP4-5 WILD-TYPE     36     15     24
D7V5, multiclass
        clus
vv       KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                1                 15
  CLUS_3                1                 24
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP4-5 MUTATED        0      1      2
  KRTAP4-5 WILD-TYPE     26      8     41
D7V6, multiclass
        clus
vv       KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE
  CLUS_1                0                 26
  CLUS_2                1                  8
  CLUS_3                2                 41
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP4-5 MUTATED        1      1      1
  KRTAP4-5 WILD-TYPE     37     17     21
D7V7, multiclass
        clus
vv       KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE
  CLUS_1                1                 37
  CLUS_2                1                 17
  CLUS_3                1                 21
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP4-5 MUTATED        2      1      0
  KRTAP4-5 WILD-TYPE     39      9     27
D7V8, multiclass
        clus
vv       KRTAP4-5 MUTATED KRTAP4-5 WILD-TYPE
  CLUS_1                2                 39
  CLUS_2                1                  9
  CLUS_3                0                 27

Clustering(8) Variable = ATN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATN1 MUTATED        0      2      0      2      0
  ATN1 WILD-TYPE     31     21     15      8      9
D8V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATN1 MUTATED        1      1      0      1      0
  ATN1 WILD-TYPE     16     10     21     17     11
D8V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATN1 MUTATED        1      1      0      1
  ATN1 WILD-TYPE     22     13     17     22
D8V3, multiclass
        clus
vv       ATN1 MUTATED ATN1 WILD-TYPE
  CLUS_1            1             22
  CLUS_2            1             13
  CLUS_3            0             17
  CLUS_4            1             22
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATN1 MUTATED        1      1      1
  ATN1 WILD-TYPE     21     31     22
D8V4, multiclass
        clus
vv       ATN1 MUTATED ATN1 WILD-TYPE
  CLUS_1            1             21
  CLUS_2            1             31
  CLUS_3            1             22
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATN1 MUTATED        1      1      1
  ATN1 WILD-TYPE     36     15     24
D8V5, multiclass
        clus
vv       ATN1 MUTATED ATN1 WILD-TYPE
  CLUS_1            1             36
  CLUS_2            1             15
  CLUS_3            1             24
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATN1 MUTATED        2      0      1
  ATN1 WILD-TYPE     24      9     42
D8V6, multiclass
        clus
vv       ATN1 MUTATED ATN1 WILD-TYPE
  CLUS_1            2             24
  CLUS_2            0              9
  CLUS_3            1             42
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATN1 MUTATED        1      1      1
  ATN1 WILD-TYPE     37     17     21
D8V7, multiclass
        clus
vv       ATN1 MUTATED ATN1 WILD-TYPE
  CLUS_1            1             37
  CLUS_2            1             17
  CLUS_3            1             21
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ATN1 MUTATED        1      0      2
  ATN1 WILD-TYPE     40     10     25
D8V8, multiclass
        clus
vv       ATN1 MUTATED ATN1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0             10
  CLUS_3            2             25

Clustering(9) Variable = DMKN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMKN MUTATED        1      1      0      1      0
  DMKN WILD-TYPE     30     22     15      9      9
D9V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DMKN MUTATED        0      1      2      0      0
  DMKN WILD-TYPE     17     10     19     18     11
D9V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DMKN MUTATED        1      1      1      0
  DMKN WILD-TYPE     22     13     16     23
D9V3, multiclass
        clus
vv       DMKN MUTATED DMKN WILD-TYPE
  CLUS_1            1             22
  CLUS_2            1             13
  CLUS_3            1             16
  CLUS_4            0             23
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DMKN MUTATED        1      0      2
  DMKN WILD-TYPE     21     32     21
D9V4, multiclass
        clus
vv       DMKN MUTATED DMKN WILD-TYPE
  CLUS_1            1             21
  CLUS_2            0             32
  CLUS_3            2             21
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DMKN MUTATED        0      3      0
  DMKN WILD-TYPE     37     13     25
D9V5, multiclass
        clus
vv       DMKN MUTATED DMKN WILD-TYPE
  CLUS_1            0             37
  CLUS_2            3             13
  CLUS_3            0             25
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DMKN MUTATED        1      0      2
  DMKN WILD-TYPE     25      9     41
D9V6, multiclass
        clus
vv       DMKN MUTATED DMKN WILD-TYPE
  CLUS_1            1             25
  CLUS_2            0              9
  CLUS_3            2             41
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DMKN MUTATED        0      3      0
  DMKN WILD-TYPE     38     15     22
D9V7, multiclass
        clus
vv       DMKN MUTATED DMKN WILD-TYPE
  CLUS_1            0             38
  CLUS_2            3             15
  CLUS_3            0             22
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DMKN MUTATED        2      0      1
  DMKN WILD-TYPE     39     10     26
D9V8, multiclass
        clus
vv       DMKN MUTATED DMKN WILD-TYPE
  CLUS_1            2             39
  CLUS_2            0             10
  CLUS_3            1             26
> q(save="no")
