
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/HNSC-TP/8228172/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/HNSC-TP/8312257/HNSC-TP.transferedmergedcluster.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=HNSC-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=HNSC-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/HNSC-TP/8312257/HNSC-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/HNSC-TP/8228172/transformed.cor.cli.txt"

nPatients in clinical file=517, in cluster file=306, common to both=306
[1]  35 306
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              64              242 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              64              242 
[1] "CDKN2A MUTATION ANALYSIS"
[1] 3
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              65              241 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              65              241 
[1] "HRAS MUTATION ANALYSIS"
[1] 3
  HRAS MUTATED HRAS WILD-TYPE 
            10            296 
  HRAS MUTATED HRAS WILD-TYPE 
            10            296 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           213             93 
  TP53 MUTATED TP53 WILD-TYPE 
           213             93 
[1] "NFE2L2 MUTATION ANALYSIS"
[1] 3
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              17              289 
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              17              289 
[1] "NOTCH1 MUTATION ANALYSIS"
[1] 3
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              57              249 
  NOTCH1 MUTATED NOTCH1 WILD-TYPE 
              57              249 
[1] "NSD1 MUTATION ANALYSIS"
[1] 3
  NSD1 MUTATED NSD1 WILD-TYPE 
            33            273 
  NSD1 MUTATED NSD1 WILD-TYPE 
            33            273 
[1] "FAT1 MUTATION ANALYSIS"
[1] 3
  FAT1 MUTATED FAT1 WILD-TYPE 
            69            237 
  FAT1 MUTATED FAT1 WILD-TYPE 
            69            237 
[1] "CASP8 MUTATION ANALYSIS"
[1] 3
  CASP8 MUTATED CASP8 WILD-TYPE 
             27             279 
  CASP8 MUTATED CASP8 WILD-TYPE 
             27             279 
[1] "JUB MUTATION ANALYSIS"
[1] 3
  JUB MUTATED JUB WILD-TYPE 
           18           288 
  JUB MUTATED JUB WILD-TYPE 
           18           288 
[1] "MLL2 MUTATION ANALYSIS"
[1] 3
  MLL2 MUTATED MLL2 WILD-TYPE 
            53            253 
  MLL2 MUTATED MLL2 WILD-TYPE 
            53            253 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             15             291 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             15             291 
[1] "ZNF750 MUTATION ANALYSIS"
[1] 3
  ZNF750 MUTATED ZNF750 WILD-TYPE 
              13              293 
  ZNF750 MUTATED ZNF750 WILD-TYPE 
              13              293 
[1] "EPHA2 MUTATION ANALYSIS"
[1] 3
  EPHA2 MUTATED EPHA2 WILD-TYPE 
             13             293 
  EPHA2 MUTATED EPHA2 WILD-TYPE 
             13             293 
[1] "FLG MUTATION ANALYSIS"
[1] 3
  FLG MUTATED FLG WILD-TYPE 
           47           259 
  FLG MUTATED FLG WILD-TYPE 
           47           259 
[1] "B2M MUTATION ANALYSIS"
[1] 3
  B2M MUTATED B2M WILD-TYPE 
            7           299 
  B2M MUTATED B2M WILD-TYPE 
            7           299 
[1] "EP300 MUTATION ANALYSIS"
[1] 3
  EP300 MUTATED EP300 WILD-TYPE 
             24             282 
  EP300 MUTATED EP300 WILD-TYPE 
             24             282 
[1] "RHOA MUTATION ANALYSIS"
[1] 3
  RHOA MUTATED RHOA WILD-TYPE 
             4            302 
  RHOA MUTATED RHOA WILD-TYPE 
             4            302 
[1] "HLA-A MUTATION ANALYSIS"
[1] 3
  HLA-A MUTATED HLA-A WILD-TYPE 
              9             297 
  HLA-A MUTATED HLA-A WILD-TYPE 
              9             297 
[1] "CTCF MUTATION ANALYSIS"
[1] 3
  CTCF MUTATED CTCF WILD-TYPE 
            11            295 
  CTCF MUTATED CTCF WILD-TYPE 
            11            295 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
           10           296 
  RB1 MUTATED RB1 WILD-TYPE 
           10           296 
[1] "CSMD3 MUTATION ANALYSIS"
[1] 3
  CSMD3 MUTATED CSMD3 WILD-TYPE 
             70             236 
  CSMD3 MUTATED CSMD3 WILD-TYPE 
             70             236 
[1] "TGFBR2 MUTATION ANALYSIS"
[1] 3
  TGFBR2 MUTATED TGFBR2 WILD-TYPE 
              10              296 
  TGFBR2 MUTATED TGFBR2 WILD-TYPE 
              10              296 
[1] "NECAB1 MUTATION ANALYSIS"
[1] 3
  NECAB1 MUTATED NECAB1 WILD-TYPE 
               6              300 
  NECAB1 MUTATED NECAB1 WILD-TYPE 
               6              300 
[1] "MAPK1 MUTATION ANALYSIS"
[1] 3
  MAPK1 MUTATED MAPK1 WILD-TYPE 
              4             302 
  MAPK1 MUTATED MAPK1 WILD-TYPE 
              4             302 
[1] "EPB41L3 MUTATION ANALYSIS"
[1] 3
  EPB41L3 MUTATED EPB41L3 WILD-TYPE 
               16               290 
  EPB41L3 MUTATED EPB41L3 WILD-TYPE 
               16               290 
[1] "RAC1 MUTATION ANALYSIS"
[1] 3
  RAC1 MUTATED RAC1 WILD-TYPE 
             9            297 
  RAC1 MUTATED RAC1 WILD-TYPE 
             9            297 
[1] "CUL3 MUTATION ANALYSIS"
[1] 3
  CUL3 MUTATED CUL3 WILD-TYPE 
            10            296 
  CUL3 MUTATED CUL3 WILD-TYPE 
            10            296 
[1] "PRB1 MUTATION ANALYSIS"
[1] 3
  PRB1 MUTATED PRB1 WILD-TYPE 
             7            299 
  PRB1 MUTATED PRB1 WILD-TYPE 
             7            299 
[1] "TRPV4 MUTATION ANALYSIS"
[1] 3
  TRPV4 MUTATED TRPV4 WILD-TYPE 
              7             299 
  TRPV4 MUTATED TRPV4 WILD-TYPE 
              7             299 
[1] "EPDR1 MUTATION ANALYSIS"
[1] 3
  EPDR1 MUTATED EPDR1 WILD-TYPE 
              6             300 
  EPDR1 MUTATED EPDR1 WILD-TYPE 
              6             300 
[1] "SLC26A7 MUTATION ANALYSIS"
[1] 3
  SLC26A7 MUTATED SLC26A7 WILD-TYPE 
                8               298 
  SLC26A7 MUTATED SLC26A7 WILD-TYPE 
                8               298 
[1] "KCNA3 MUTATION ANALYSIS"
[1] 3
  KCNA3 MUTATED KCNA3 WILD-TYPE 
              8             298 
  KCNA3 MUTATED KCNA3 WILD-TYPE 
              8             298 
[1] "HIST1H1B MUTATION ANALYSIS"
[1] 3
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 7                299 
  HIST1H1B MUTATED HIST1H1B WILD-TYPE 
                 7                299 
[1] "STEAP4 MUTATION ANALYSIS"
[1] 3
  STEAP4 MUTATED STEAP4 WILD-TYPE 
              10              296 
  STEAP4 MUTATED STEAP4 WILD-TYPE 
              10              296 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 10 rows and 306 columns.

Variable 1:'CN_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 306 columns, 0 survival variables, and 10 non-survival variables.
CN_CNMF, nv=4, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=7, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=2, 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 = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       14     19     26      3
  PIK3CA WILD-TYPE    100     49     77     14
D1V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             14              100
  CLUS_2             19               49
  CLUS_3             26               77
  CLUS_4              3               14
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3CA MUTATED        5      8     17     16      7      9      2
  PIK3CA WILD-TYPE     37     48     47     28     31     38     13
D1V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       12      9      8     10
  PIK3CA WILD-TYPE     43     43     27     56
D1V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             12               43
  CLUS_2              9               43
  CLUS_3              8               27
  CLUS_4             10               56
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        2     14     23
  PIK3CA WILD-TYPE     15     59     95
D1V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               15
  CLUS_2             14               59
  CLUS_3             23               95
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       31     13     20
  PIK3CA WILD-TYPE     93     82     65
D1V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             31               93
  CLUS_2             13               82
  CLUS_3             20               65
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       17     21     26
  PIK3CA WILD-TYPE     83     71     86
D1V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             17               83
  CLUS_2             21               71
  CLUS_3             26               86
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       16     35     13
  PIK3CA WILD-TYPE     46     97     97
D1V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             16               46
  CLUS_2             35               97
  CLUS_3             13               97
D1V8, binary
                  cls
clus                 0   1
  PIK3CA MUTATED    21  43
  PIK3CA WILD-TYPE 103 137
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3CA MUTATED     21   43
  PIK3CA WILD-TYPE  103  137
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             21              103
  CLUS_2             43              137
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        8     34     15
  PIK3CA WILD-TYPE     33     92     86
D1V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              8               33
  CLUS_2             34               92
  CLUS_3             15               86
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       17     36      4
  PIK3CA WILD-TYPE     84    107     20
D1V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             17               84
  CLUS_2             36              107
  CLUS_3              4               20

Clustering(2) Variable = CDKN2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDKN2A MUTATED       28     14     16      7
  CDKN2A WILD-TYPE     86     54     87     10
D2V1, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             28               86
  CLUS_2             14               54
  CLUS_3             16               87
  CLUS_4              7               10
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CDKN2A MUTATED        5     18     19      1      9     10      3
  CDKN2A WILD-TYPE     37     38     45     43     29     37     12
D2V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDKN2A MUTATED       11      6     17     19
  CDKN2A WILD-TYPE     44     46     18     47
D2V3, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             11               44
  CLUS_2              6               46
  CLUS_3             17               18
  CLUS_4             19               47
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED        2     22     29
  CDKN2A WILD-TYPE     15     51     89
D2V4, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2               15
  CLUS_2             22               51
  CLUS_3             29               89
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED       22     19     24
  CDKN2A WILD-TYPE    102     76     61
D2V5, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             22              102
  CLUS_2             19               76
  CLUS_3             24               61
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED       25     22     18
  CDKN2A WILD-TYPE     75     70     94
D2V6, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             25               75
  CLUS_2             22               70
  CLUS_3             18               94
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED       12     24     28
  CDKN2A WILD-TYPE     50    108     82
D2V7, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             12               50
  CLUS_2             24              108
  CLUS_3             28               82
D2V8, binary
                  cls
clus                 0   1
  CDKN2A MUTATED    33  31
  CDKN2A WILD-TYPE  91 149
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CDKN2A MUTATED     33   31
  CDKN2A WILD-TYPE   91  149
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             33               91
  CLUS_2             31              149
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED       12     24     22
  CDKN2A WILD-TYPE     29    102     79
D2V9, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             12               29
  CLUS_2             24              102
  CLUS_3             22               79
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED       26     26      6
  CDKN2A WILD-TYPE     75    117     18
D2V10, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1             26               75
  CLUS_2             26              117
  CLUS_3              6               18

Clustering(3) Variable = HRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HRAS MUTATED        0      0     10      0
  HRAS WILD-TYPE    114     68     93     17
D3V1, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0            114
  CLUS_2            0             68
  CLUS_3           10             93
  CLUS_4            0             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HRAS MUTATED        1      1      0      0      5      2      1
  HRAS WILD-TYPE     41     55     64     44     33     45     14
D3V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HRAS MUTATED        1      1      3      2
  HRAS WILD-TYPE     54     51     32     64
D3V3, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            1             54
  CLUS_2            1             51
  CLUS_3            3             32
  CLUS_4            2             64
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        1      4      2
  HRAS WILD-TYPE     16     69    116
D3V4, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            1             16
  CLUS_2            4             69
  CLUS_3            2            116
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        1      1      8
  HRAS WILD-TYPE    123     94     77
D3V5, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            1            123
  CLUS_2            1             94
  CLUS_3            8             77
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        1      8      1
  HRAS WILD-TYPE     99     84    111
D3V6, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            1             99
  CLUS_2            8             84
  CLUS_3            1            111
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        3      3      4
  HRAS WILD-TYPE     59    129    106
D3V7, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3            129
  CLUS_3            4            106
D3V8, binary
                cls
clus               0   1
  HRAS MUTATED     1   9
  HRAS WILD-TYPE 123 171
[1] "tbl2"
                cls
clus             [,1] [,2]
  HRAS MUTATED      1    9
  HRAS WILD-TYPE  123  171
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            1            123
  CLUS_2            9            171
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        2      5      3
  HRAS WILD-TYPE     39    121     98
D3V9, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            2             39
  CLUS_2            5            121
  CLUS_3            3             98
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        3      5      2
  HRAS WILD-TYPE     98    138     22
D3V10, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            3             98
  CLUS_2            5            138
  CLUS_3            2             22

Clustering(4) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED      102     52     48      9
  TP53 WILD-TYPE     12     16     55      8
D4V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          102             12
  CLUS_2           52             16
  CLUS_3           48             55
  CLUS_4            9              8
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TP53 MUTATED       34     50     55      4     23     34     13
  TP53 WILD-TYPE      8      6      9     40     15     13      2
D4V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       45     33     28     54
  TP53 WILD-TYPE     10     19      7     12
D4V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           45             10
  CLUS_2           33             19
  CLUS_3           28              7
  CLUS_4           54             12
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        9     57     94
  TP53 WILD-TYPE      8     16     24
D4V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            9              8
  CLUS_2           57             16
  CLUS_3           94             24
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       77     77     58
  TP53 WILD-TYPE     47     18     27
D4V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           77             47
  CLUS_2           77             18
  CLUS_3           58             27
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       83     65     64
  TP53 WILD-TYPE     17     27     48
D4V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           83             17
  CLUS_2           65             27
  CLUS_3           64             48
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       41     84     87
  TP53 WILD-TYPE     21     48     23
D4V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           41             21
  CLUS_2           84             48
  CLUS_3           87             23
D4V8, binary
                cls
clus               0   1
  TP53 MUTATED   101 111
  TP53 WILD-TYPE  23  69
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED    101  111
  TP53 WILD-TYPE   23   69
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          101             23
  CLUS_2          111             69
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       25     84     78
  TP53 WILD-TYPE     16     42     23
D4V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           25             16
  CLUS_2           84             42
  CLUS_3           78             23
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       81     91     15
  TP53 WILD-TYPE     20     52      9
D4V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           81             20
  CLUS_2           91             52
  CLUS_3           15              9

Clustering(5) Variable = NFE2L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        6      3      7      1
  NFE2L2 WILD-TYPE    108     65     96     16
D5V1, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              6              108
  CLUS_2              3               65
  CLUS_3              7               96
  CLUS_4              1               16
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NFE2L2 MUTATED        0      0     10      0      5      2      0
  NFE2L2 WILD-TYPE     42     56     54     44     33     45     15
D5V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        4      6      2      2
  NFE2L2 WILD-TYPE     51     46     33     64
D5V3, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              4               51
  CLUS_2              6               46
  CLUS_3              2               33
  CLUS_4              2               64
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        1      5      8
  NFE2L2 WILD-TYPE     16     68    110
D5V4, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               16
  CLUS_2              5               68
  CLUS_3              8              110
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        7      5      5
  NFE2L2 WILD-TYPE    117     90     80
D5V5, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              7              117
  CLUS_2              5               90
  CLUS_3              5               80
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        6      6      5
  NFE2L2 WILD-TYPE     94     86    107
D5V6, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              6               94
  CLUS_2              6               86
  CLUS_3              5              107
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        1      8      8
  NFE2L2 WILD-TYPE     61    124    102
D5V7, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               61
  CLUS_2              8              124
  CLUS_3              8              102
D5V8, binary
                  cls
clus                 0   1
  NFE2L2 MUTATED     7  10
  NFE2L2 WILD-TYPE 117 170
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NFE2L2 MUTATED      7   10
  NFE2L2 WILD-TYPE  117  170
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              7              117
  CLUS_2             10              170
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        1      6      9
  NFE2L2 WILD-TYPE     40    120     92
D5V9, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              6              120
  CLUS_3              9               92
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        5      9      2
  NFE2L2 WILD-TYPE     96    134     22
D5V10, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              5               96
  CLUS_2              9              134
  CLUS_3              2               22

Clustering(6) Variable = NOTCH1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH1 MUTATED       24      7     22      3
  NOTCH1 WILD-TYPE     90     61     81     14
D6V1, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             24               90
  CLUS_2              7               61
  CLUS_3             22               81
  CLUS_4              3               14
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NOTCH1 MUTATED        3     13     10      2     12     13      4
  NOTCH1 WILD-TYPE     39     43     54     42     26     34     11
D6V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH1 MUTATED       15      4      6     14
  NOTCH1 WILD-TYPE     40     48     29     52
D6V3, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             15               40
  CLUS_2              4               48
  CLUS_3              6               29
  CLUS_4             14               52
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        2     21     16
  NOTCH1 WILD-TYPE     15     52    102
D6V4, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              2               15
  CLUS_2             21               52
  CLUS_3             16              102
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED       12     22     23
  NOTCH1 WILD-TYPE    112     73     62
D6V5, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             12              112
  CLUS_2             22               73
  CLUS_3             23               62
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED       21     27      9
  NOTCH1 WILD-TYPE     79     65    103
D6V6, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             21               79
  CLUS_2             27               65
  CLUS_3              9              103
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED       19     10     27
  NOTCH1 WILD-TYPE     43    122     83
D6V7, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             19               43
  CLUS_2             10              122
  CLUS_3             27               83
D6V8, binary
                  cls
clus                 0   1
  NOTCH1 MUTATED    27  29
  NOTCH1 WILD-TYPE  97 151
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NOTCH1 MUTATED     27   29
  NOTCH1 WILD-TYPE   97  151
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             27               97
  CLUS_2             29              151
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED        9     14     25
  NOTCH1 WILD-TYPE     32    112     76
D6V9, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1              9               32
  CLUS_2             14              112
  CLUS_3             25               76
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH1 MUTATED       22     18      8
  NOTCH1 WILD-TYPE     79    125     16
D6V10, multiclass
        clus
vv       NOTCH1 MUTATED NOTCH1 WILD-TYPE
  CLUS_1             22               79
  CLUS_2             18              125
  CLUS_3              8               16

Clustering(7) Variable = NSD1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NSD1 MUTATED       11     14      8      0
  NSD1 WILD-TYPE    103     54     95     17
D7V1, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1           11            103
  CLUS_2           14             54
  CLUS_3            8             95
  CLUS_4            0             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NSD1 MUTATED       25      1      0      3      3      1      0
  NSD1 WILD-TYPE     17     55     64     41     35     46     15
D7V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NSD1 MUTATED        7      7      5      2
  NSD1 WILD-TYPE     48     45     30     64
D7V3, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1            7             48
  CLUS_2            7             45
  CLUS_3            5             30
  CLUS_4            2             64
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NSD1 MUTATED        0      8     13
  NSD1 WILD-TYPE     17     65    105
D7V4, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1            0             17
  CLUS_2            8             65
  CLUS_3           13            105
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NSD1 MUTATED       24      3      6
  NSD1 WILD-TYPE    100     92     79
D7V5, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1           24            100
  CLUS_2            3             92
  CLUS_3            6             79
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NSD1 MUTATED        4      5     24
  NSD1 WILD-TYPE     96     87     88
D7V6, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            5             87
  CLUS_3           24             88
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NSD1 MUTATED        7     21      5
  NSD1 WILD-TYPE     55    111    105
D7V7, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1            7             55
  CLUS_2           21            111
  CLUS_3            5            105
D7V8, binary
                cls
clus               0   1
  NSD1 MUTATED     6  27
  NSD1 WILD-TYPE 118 153
[1] "tbl2"
                cls
clus             [,1] [,2]
  NSD1 MUTATED      6   27
  NSD1 WILD-TYPE  118  153
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1            6            118
  CLUS_2           27            153
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NSD1 MUTATED        5     19      5
  NSD1 WILD-TYPE     36    107     96
D7V9, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1            5             36
  CLUS_2           19            107
  CLUS_3            5             96
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NSD1 MUTATED        5     22      2
  NSD1 WILD-TYPE     96    121     22
D7V10, multiclass
        clus
vv       NSD1 MUTATED NSD1 WILD-TYPE
  CLUS_1            5             96
  CLUS_2           22            121
  CLUS_3            2             22

Clustering(8) Variable = FAT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAT1 MUTATED       20     19     26      3
  FAT1 WILD-TYPE     94     49     77     14
D8V1, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           20             94
  CLUS_2           19             49
  CLUS_3           26             77
  CLUS_4            3             14
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FAT1 MUTATED       11     11     17      3     14     10      3
  FAT1 WILD-TYPE     31     45     47     41     24     37     12
D8V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAT1 MUTATED       12     11      7     17
  FAT1 WILD-TYPE     43     41     28     49
D8V3, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           12             43
  CLUS_2           11             41
  CLUS_3            7             28
  CLUS_4           17             49
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED        4     16     27
  FAT1 WILD-TYPE     13     57     91
D8V4, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            4             13
  CLUS_2           16             57
  CLUS_3           27             91
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED       21     27     21
  FAT1 WILD-TYPE    103     68     64
D8V5, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           21            103
  CLUS_2           27             68
  CLUS_3           21             64
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED       28     21     20
  FAT1 WILD-TYPE     72     71     92
D8V6, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           28             72
  CLUS_2           21             71
  CLUS_3           20             92
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED       10     26     32
  FAT1 WILD-TYPE     52    106     78
D8V7, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           10             52
  CLUS_2           26            106
  CLUS_3           32             78
D8V8, binary
                cls
clus               0   1
  FAT1 MUTATED    31  37
  FAT1 WILD-TYPE  93 143
[1] "tbl2"
                cls
clus             [,1] [,2]
  FAT1 MUTATED     31   37
  FAT1 WILD-TYPE   93  143
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           31             93
  CLUS_2           37            143
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED        9     29     26
  FAT1 WILD-TYPE     32     97     75
D8V9, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            9             32
  CLUS_2           29             97
  CLUS_3           26             75
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED       31     28      5
  FAT1 WILD-TYPE     70    115     19
D8V10, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           31             70
  CLUS_2           28            115
  CLUS_3            5             19

Clustering(9) Variable = CASP8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        3      1     20      2
  CASP8 WILD-TYPE    111     67     83     15
D9V1, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             3             111
  CLUS_2             1              67
  CLUS_3            20              83
  CLUS_4             2              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CASP8 MUTATED        2      2      0      0     15      6      2
  CASP8 WILD-TYPE     40     54     64     44     23     41     13
D9V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        5      1      8      8
  CASP8 WILD-TYPE     50     51     27     58
D9V3, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             5              50
  CLUS_2             1              51
  CLUS_3             8              27
  CLUS_4             8              58
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        1     11     10
  CASP8 WILD-TYPE     16     62    108
D9V4, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1              16
  CLUS_2            11              62
  CLUS_3            10             108
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        1      5     21
  CASP8 WILD-TYPE    123     90     64
D9V5, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1             123
  CLUS_2             5              90
  CLUS_3            21              64
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        7     19      1
  CASP8 WILD-TYPE     93     73    111
D9V6, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             7              93
  CLUS_2            19              73
  CLUS_3             1             111
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        8      7     11
  CASP8 WILD-TYPE     54    125     99
D9V7, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             8              54
  CLUS_2             7             125
  CLUS_3            11              99
D9V8, binary
                 cls
clus                0   1
  CASP8 MUTATED    10  16
  CASP8 WILD-TYPE 114 164
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CASP8 MUTATED     10   16
  CASP8 WILD-TYPE  114  164
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1            10             114
  CLUS_2            16             164
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        5      9     10
  CASP8 WILD-TYPE     36    117     91
D9V9, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             5              36
  CLUS_2             9             117
  CLUS_3            10              91
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED       10      7      7
  CASP8 WILD-TYPE     91    136     17
D9V10, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1            10              91
  CLUS_2             7             136
  CLUS_3             7              17

Clustering(10) Variable = JUB MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JUB MUTATED       10      3      4      1
  JUB WILD-TYPE    104     65     99     16
D10V1, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1          10           104
  CLUS_2           3            65
  CLUS_3           4            99
  CLUS_4           1            16
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  JUB MUTATED        0      6      5      1      3      1      2
  JUB WILD-TYPE     42     50     59     43     35     46     13
D10V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JUB MUTATED        5      2      3      2
  JUB WILD-TYPE     50     50     32     64
D10V3, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           5            50
  CLUS_2           2            50
  CLUS_3           3            32
  CLUS_4           2            64
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  JUB MUTATED        1      6      5
  JUB WILD-TYPE     16     67    113
D10V4, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           1            16
  CLUS_2           6            67
  CLUS_3           5           113
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  JUB MUTATED        5      4      9
  JUB WILD-TYPE    119     91     76
D10V5, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           5           119
  CLUS_2           4            91
  CLUS_3           9            76
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  JUB MUTATED        5      9      4
  JUB WILD-TYPE     95     83    108
D10V6, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           5            95
  CLUS_2           9            83
  CLUS_3           4           108
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  JUB MUTATED        7      8      3
  JUB WILD-TYPE     55    124    107
D10V7, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           7            55
  CLUS_2           8           124
  CLUS_3           3           107
D10V8, binary
               cls
clus              0   1
  JUB MUTATED     7  11
  JUB WILD-TYPE 117 169
[1] "tbl2"
               cls
clus            [,1] [,2]
  JUB MUTATED      7   11
  JUB WILD-TYPE  117  169
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           7           117
  CLUS_2          11           169
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  JUB MUTATED        6      9      3
  JUB WILD-TYPE     35    117     98
D10V9, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           6            35
  CLUS_2           9           117
  CLUS_3           3            98
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  JUB MUTATED        7     10      1
  JUB WILD-TYPE     94    133     23
D10V10, multiclass
        clus
vv       JUB MUTATED JUB WILD-TYPE
  CLUS_1           7            94
  CLUS_2          10           133
  CLUS_3           1            23

Clustering(11) Variable = MLL2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL2 MUTATED       20     20     10      3
  MLL2 WILD-TYPE     94     48     93     14
D11V1, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           20             94
  CLUS_2           20             48
  CLUS_3           10             93
  CLUS_4            3             14
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MLL2 MUTATED       11      8     17      9      3      4      1
  MLL2 WILD-TYPE     31     48     47     35     35     43     14
D11V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL2 MUTATED        7     11      8     10
  MLL2 WILD-TYPE     48     41     27     56
D11V3, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            7             48
  CLUS_2           11             41
  CLUS_3            8             27
  CLUS_4           10             56
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED        3     14     19
  MLL2 WILD-TYPE     14     59     99
D11V4, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            3             14
  CLUS_2           14             59
  CLUS_3           19             99
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED       29     12     12
  MLL2 WILD-TYPE     95     83     73
D11V5, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           29             95
  CLUS_2           12             83
  CLUS_3           12             73
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED       11     16     26
  MLL2 WILD-TYPE     89     76     86
D11V6, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           11             89
  CLUS_2           16             76
  CLUS_3           26             86
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED       11     29     12
  MLL2 WILD-TYPE     51    103     98
D11V7, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           11             51
  CLUS_2           29            103
  CLUS_3           12             98
D11V8, binary
                cls
clus               0   1
  MLL2 MUTATED    12  40
  MLL2 WILD-TYPE 112 140
[1] "tbl2"
                cls
clus             [,1] [,2]
  MLL2 MUTATED     12   40
  MLL2 WILD-TYPE  112  140
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           12            112
  CLUS_2           40            140
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED        5     28     12
  MLL2 WILD-TYPE     36     98     89
D11V9, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            5             36
  CLUS_2           28             98
  CLUS_3           12             89
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLL2 MUTATED       10     32      3
  MLL2 WILD-TYPE     91    111     21
D11V10, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           10             91
  CLUS_2           32            111
  CLUS_3            3             21

Clustering(12) Variable = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        6      5      4      0
  FBXW7 WILD-TYPE    108     63     99     17
D12V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             6             108
  CLUS_2             5              63
  CLUS_3             4              99
  CLUS_4             0              17
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FBXW7 MUTATED        4      0      5      1      2      1      2
  FBXW7 WILD-TYPE     38     56     59     43     36     46     13
D12V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        1      4      1      5
  FBXW7 WILD-TYPE     54     48     34     61
D12V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             4              48
  CLUS_3             1              34
  CLUS_4             5              61
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        1      1      9
  FBXW7 WILD-TYPE     16     72    109
D12V4, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1              16
  CLUS_2             1              72
  CLUS_3             9             109
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        7      3      5
  FBXW7 WILD-TYPE    117     92     80
D12V5, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             7             117
  CLUS_2             3              92
  CLUS_3             5              80
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        4      3      8
  FBXW7 WILD-TYPE     96     89    104
D12V6, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             4              96
  CLUS_2             3              89
  CLUS_3             8             104
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        4      6      5
  FBXW7 WILD-TYPE     58    126    105
D12V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             6             126
  CLUS_3             5             105
D12V8, binary
                 cls
clus                0   1
  FBXW7 MUTATED     5  10
  FBXW7 WILD-TYPE 119 170
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FBXW7 MUTATED      5   10
  FBXW7 WILD-TYPE  119  170
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             5             119
  CLUS_2            10             170
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        2      6      4
  FBXW7 WILD-TYPE     39    120     97
D12V9, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             6             120
  CLUS_3             4              97
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        4      7      1
  FBXW7 WILD-TYPE     97    136     23
D12V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             4              97
  CLUS_2             7             136
  CLUS_3             1              23

Clustering(13) Variable = ZNF750 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF750 MUTATED        3      5      5      0
  ZNF750 WILD-TYPE    111     63     98     17
D13V1, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              3              111
  CLUS_2              5               63
  CLUS_3              5               98
  CLUS_4              0               17
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF750 MUTATED        1      0      4      5      1      2      0
  ZNF750 WILD-TYPE     41     56     60     39     37     45     15
D13V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF750 MUTATED        2      2      0      2
  ZNF750 WILD-TYPE     53     50     35     64
D13V3, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              2               53
  CLUS_2              2               50
  CLUS_3              0               35
  CLUS_4              2               64
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF750 MUTATED        1      2      3
  ZNF750 WILD-TYPE     16     71    115
D13V4, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              1               16
  CLUS_2              2               71
  CLUS_3              3              115
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF750 MUTATED        9      3      1
  ZNF750 WILD-TYPE    115     92     84
D13V5, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              9              115
  CLUS_2              3               92
  CLUS_3              1               84
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF750 MUTATED        4      1      8
  ZNF750 WILD-TYPE     96     91    104
D13V6, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              1               91
  CLUS_3              8              104
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF750 MUTATED        2      7      4
  ZNF750 WILD-TYPE     60    125    106
D13V7, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              7              125
  CLUS_3              4              106
D13V8, binary
                  cls
clus                 0   1
  ZNF750 MUTATED     5   8
  ZNF750 WILD-TYPE 119 172
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ZNF750 MUTATED      5    8
  ZNF750 WILD-TYPE  119  172
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              5              119
  CLUS_2              8              172
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF750 MUTATED        0      7      5
  ZNF750 WILD-TYPE     41    119     96
D13V9, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              7              119
  CLUS_3              5               96
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF750 MUTATED        5      7      0
  ZNF750 WILD-TYPE     96    136     24
D13V10, multiclass
        clus
vv       ZNF750 MUTATED ZNF750 WILD-TYPE
  CLUS_1              5               96
  CLUS_2              7              136
  CLUS_3              0               24

Clustering(14) Variable = EPHA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPHA2 MUTATED        5      1      5      1
  EPHA2 WILD-TYPE    109     67     98     16
D14V1, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             5             109
  CLUS_2             1              67
  CLUS_3             5              98
  CLUS_4             1              16
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EPHA2 MUTATED        1      3      0      1      6      0      2
  EPHA2 WILD-TYPE     41     53     64     43     32     47     13
D14V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPHA2 MUTATED        4      2      1      5
  EPHA2 WILD-TYPE     51     50     34     61
D14V3, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             4              51
  CLUS_2             2              50
  CLUS_3             1              34
  CLUS_4             5              61
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        1      5      6
  EPHA2 WILD-TYPE     16     68    112
D14V4, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             1              16
  CLUS_2             5              68
  CLUS_3             6             112
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        2      4      7
  EPHA2 WILD-TYPE    122     91     78
D14V5, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             2             122
  CLUS_2             4              91
  CLUS_3             7              78
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        5      6      2
  EPHA2 WILD-TYPE     95     86    110
D14V6, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             5              95
  CLUS_2             6              86
  CLUS_3             2             110
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        4      3      5
  EPHA2 WILD-TYPE     58    129    105
D14V7, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3             129
  CLUS_3             5             105
D14V8, binary
                 cls
clus                0   1
  EPHA2 MUTATED     7   5
  EPHA2 WILD-TYPE 117 175
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EPHA2 MUTATED      7    5
  EPHA2 WILD-TYPE  117  175
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             7             117
  CLUS_2             5             175
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        2      3      4
  EPHA2 WILD-TYPE     39    123     97
D14V9, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             3             123
  CLUS_3             4              97
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPHA2 MUTATED        4      2      3
  EPHA2 WILD-TYPE     97    141     21
D14V10, multiclass
        clus
vv       EPHA2 MUTATED EPHA2 WILD-TYPE
  CLUS_1             4              97
  CLUS_2             2             141
  CLUS_3             3              21

Clustering(15) Variable = FLG MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLG MUTATED       13     14     17      3
  FLG WILD-TYPE    101     54     86     14
D15V1, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          13           101
  CLUS_2          14            54
  CLUS_3          17            86
  CLUS_4           3            14
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FLG MUTATED        5      5     16      7      8      4      2
  FLG WILD-TYPE     37     51     48     37     30     43     13
D15V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLG MUTATED        9      9      7      7
  FLG WILD-TYPE     46     43     28     59
D15V3, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           9            46
  CLUS_2           9            43
  CLUS_3           7            28
  CLUS_4           7            59
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED        2     13     17
  FLG WILD-TYPE     15     60    101
D15V4, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           2            15
  CLUS_2          13            60
  CLUS_3          17           101
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED       26      9     12
  FLG WILD-TYPE     98     86     73
D15V5, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          26            98
  CLUS_2           9            86
  CLUS_3          12            73
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED       11     14     22
  FLG WILD-TYPE     89     78     90
D15V6, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          11            89
  CLUS_2          14            78
  CLUS_3          22            90
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED       11     26     10
  FLG WILD-TYPE     51    106    100
D15V7, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          11            51
  CLUS_2          26           106
  CLUS_3          10           100
D15V8, binary
               cls
clus              0   1
  FLG MUTATED    14  33
  FLG WILD-TYPE 110 147
[1] "tbl2"
               cls
clus            [,1] [,2]
  FLG MUTATED     14   33
  FLG WILD-TYPE  110  147
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          14           110
  CLUS_2          33           147
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED        5     25     10
  FLG WILD-TYPE     36    101     91
D15V9, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1           5            36
  CLUS_2          25           101
  CLUS_3          10            91
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FLG MUTATED       10     29      1
  FLG WILD-TYPE     91    114     23
D15V10, multiclass
        clus
vv       FLG MUTATED FLG WILD-TYPE
  CLUS_1          10            91
  CLUS_2          29           114
  CLUS_3           1            23

Clustering(16) Variable = B2M MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  B2M MUTATED        0      3      4      0
  B2M WILD-TYPE    114     65     99     17
D16V1, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           0           114
  CLUS_2           3            65
  CLUS_3           4            99
  CLUS_4           0            17
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  B2M MUTATED        0      0      1      4      1      1      0
  B2M WILD-TYPE     42     56     63     40     37     46     15
D16V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  B2M MUTATED        1      0      0      0
  B2M WILD-TYPE     54     52     35     66
D16V3, multiclass
[1] "Remove cluster labels:" "B2M MUTATED"           
clus
  B2M MUTATED B2M WILD-TYPE 
            1           207 
   TCGA-BA-4074    TCGA-BA-4078    TCGA-BA-5149    TCGA-BA-5151    TCGA-BA-5152 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BA-5153    TCGA-BA-5555    TCGA-BA-5556    TCGA-BA-5557    TCGA-BA-5559 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BA-6869    TCGA-BA-6870    TCGA-BA-6871    TCGA-BA-6872    TCGA-BA-6873 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BB-4217    TCGA-CN-4723    TCGA-CN-4725    TCGA-CN-4726    TCGA-CN-4727 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-4728    TCGA-CN-4729    TCGA-CN-4730    TCGA-CN-4731    TCGA-CN-4733 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-4734    TCGA-CN-4735    TCGA-CN-4736    TCGA-CN-4737    TCGA-CN-4738 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-4739    TCGA-CN-4740    TCGA-CN-4741    TCGA-CN-4742    TCGA-CN-5355 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-5356    TCGA-CN-5358    TCGA-CN-5359    TCGA-CN-5360    TCGA-CN-5361 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-5363    TCGA-CN-5364    TCGA-CN-5365    TCGA-CN-5366    TCGA-CN-5367 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-5369    TCGA-CN-5370    TCGA-CN-5373    TCGA-CN-5374    TCGA-CN-6010 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6011    TCGA-CN-6012    TCGA-CN-6013    TCGA-CN-6016    TCGA-CN-6017 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6018    TCGA-CN-6019    TCGA-CN-6020    TCGA-CN-6021    TCGA-CN-6022 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6023    TCGA-CN-6024    TCGA-CN-6988    TCGA-CN-6989    TCGA-CN-6992 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6994    TCGA-CN-6995    TCGA-CN-6996    TCGA-CN-6997    TCGA-CN-6998 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-5323    TCGA-CQ-5324    TCGA-CQ-5325    TCGA-CQ-5326    TCGA-CQ-5327 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-5329    TCGA-CQ-5330    TCGA-CQ-5331    TCGA-CQ-5332    TCGA-CQ-5334 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-6218    TCGA-CQ-6219    TCGA-CQ-6220    TCGA-CQ-6221    TCGA-CQ-6222 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-6224    TCGA-CQ-6225    TCGA-CQ-6227    TCGA-CQ-6228    TCGA-CQ-6229 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-7065    TCGA-CQ-7068    TCGA-CV-5430    TCGA-CV-5431    TCGA-CV-5432 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5434    TCGA-CV-5436    TCGA-CV-5439    TCGA-CV-5440    TCGA-CV-5441 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5442    TCGA-CV-5443    TCGA-CV-5444    TCGA-CV-5966    TCGA-CV-5970 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5971    TCGA-CV-5973    TCGA-CV-5976    TCGA-CV-5977    TCGA-CV-5978 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5979    TCGA-CV-6003    TCGA-CV-6433    TCGA-CV-6436    TCGA-CV-6441 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6933    TCGA-CV-6934    TCGA-CV-6935    TCGA-CV-6936    TCGA-CV-6937 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6938    TCGA-CV-6939    TCGA-CV-6940    TCGA-CV-6941    TCGA-CV-6942 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6943    TCGA-CV-6945    TCGA-CV-6948    TCGA-CV-6950    TCGA-CV-6951 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6952    TCGA-CV-6953    TCGA-CV-6954    TCGA-CV-6955    TCGA-CV-6956 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6959    TCGA-CV-6960    TCGA-CV-6961    TCGA-CV-6962    TCGA-CV-7089 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7090    TCGA-CV-7091    TCGA-CV-7095    TCGA-CV-7097    TCGA-CV-7100 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7101    TCGA-CV-7102    TCGA-CV-7103    TCGA-CV-7104    TCGA-CV-7177 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7178    TCGA-CV-7180    TCGA-CV-7183    TCGA-CV-7235    TCGA-CV-7236 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7238    TCGA-CV-7242    TCGA-CV-7243    TCGA-CV-7245    TCGA-CV-7247 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7248    TCGA-CV-7250    TCGA-CV-7252    TCGA-CV-7253    TCGA-CV-7254 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7255    TCGA-CV-7261    TCGA-CV-7263    TCGA-CV-7406    TCGA-CV-7407 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7410    TCGA-CV-7411    TCGA-CV-7413    TCGA-CV-7414    TCGA-CV-7415 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7416    TCGA-CV-7418    TCGA-CV-7421    TCGA-CV-7422    TCGA-CV-7423 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7424    TCGA-CV-7425    TCGA-CV-7427    TCGA-CV-7429    TCGA-CV-7430 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7432    TCGA-CV-7433    TCGA-CV-7434    TCGA-CV-7435    TCGA-CV-7437 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7438    TCGA-CV-7440    TCGA-CX-7085    TCGA-CX-7086    TCGA-CX-7219 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D6-6515    TCGA-D6-6516    TCGA-D6-6517    TCGA-D6-6823    TCGA-D6-6824 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D6-6825    TCGA-D6-6826    TCGA-D6-6827    TCGA-DQ-7591    TCGA-DQ-7592 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-IQ-7630    TCGA-IQ-7632 
"B2M WILD-TYPE" "B2M WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        0      1      0
  B2M WILD-TYPE     17     72    118
D16V4, multiclass
[1] "Remove cluster labels:" "B2M MUTATED"           
clus
  B2M MUTATED B2M WILD-TYPE 
            1           207 
   TCGA-BA-4074    TCGA-BA-4078    TCGA-BA-5149    TCGA-BA-5151    TCGA-BA-5152 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BA-5153    TCGA-BA-5555    TCGA-BA-5556    TCGA-BA-5557    TCGA-BA-5559 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BA-6869    TCGA-BA-6870    TCGA-BA-6871    TCGA-BA-6872    TCGA-BA-6873 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-BB-4217    TCGA-CN-4723    TCGA-CN-4725    TCGA-CN-4726    TCGA-CN-4727 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-4728    TCGA-CN-4729    TCGA-CN-4730    TCGA-CN-4731    TCGA-CN-4733 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-4734    TCGA-CN-4735    TCGA-CN-4736    TCGA-CN-4737    TCGA-CN-4738 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-4739    TCGA-CN-4740    TCGA-CN-4741    TCGA-CN-4742    TCGA-CN-5355 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-5356    TCGA-CN-5358    TCGA-CN-5359    TCGA-CN-5360    TCGA-CN-5361 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-5363    TCGA-CN-5364    TCGA-CN-5365    TCGA-CN-5366    TCGA-CN-5367 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-5369    TCGA-CN-5370    TCGA-CN-5373    TCGA-CN-5374    TCGA-CN-6010 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6011    TCGA-CN-6012    TCGA-CN-6013    TCGA-CN-6016    TCGA-CN-6017 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6018    TCGA-CN-6019    TCGA-CN-6020    TCGA-CN-6021    TCGA-CN-6022 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6023    TCGA-CN-6024    TCGA-CN-6988    TCGA-CN-6989    TCGA-CN-6992 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CN-6994    TCGA-CN-6995    TCGA-CN-6996    TCGA-CN-6997    TCGA-CN-6998 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-5323    TCGA-CQ-5324    TCGA-CQ-5325    TCGA-CQ-5326    TCGA-CQ-5327 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-5329    TCGA-CQ-5330    TCGA-CQ-5331    TCGA-CQ-5332    TCGA-CQ-5334 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-6218    TCGA-CQ-6219    TCGA-CQ-6220    TCGA-CQ-6221    TCGA-CQ-6222 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-6224    TCGA-CQ-6225    TCGA-CQ-6227    TCGA-CQ-6228    TCGA-CQ-6229 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CQ-7065    TCGA-CQ-7068    TCGA-CV-5430    TCGA-CV-5431    TCGA-CV-5432 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5434    TCGA-CV-5436    TCGA-CV-5439    TCGA-CV-5440    TCGA-CV-5441 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5442    TCGA-CV-5443    TCGA-CV-5444    TCGA-CV-5966    TCGA-CV-5970 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5971    TCGA-CV-5973    TCGA-CV-5976    TCGA-CV-5977    TCGA-CV-5978 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-5979    TCGA-CV-6003    TCGA-CV-6433    TCGA-CV-6436    TCGA-CV-6441 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6933    TCGA-CV-6934    TCGA-CV-6935    TCGA-CV-6936    TCGA-CV-6937 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6938    TCGA-CV-6939    TCGA-CV-6940    TCGA-CV-6941    TCGA-CV-6942 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6943    TCGA-CV-6945    TCGA-CV-6948    TCGA-CV-6950    TCGA-CV-6951 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6952    TCGA-CV-6953    TCGA-CV-6954    TCGA-CV-6955    TCGA-CV-6956 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-6959    TCGA-CV-6960    TCGA-CV-6961    TCGA-CV-6962    TCGA-CV-7089 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7090    TCGA-CV-7091    TCGA-CV-7095    TCGA-CV-7097    TCGA-CV-7100 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7101    TCGA-CV-7102    TCGA-CV-7103    TCGA-CV-7104    TCGA-CV-7177 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7178    TCGA-CV-7180    TCGA-CV-7183    TCGA-CV-7235    TCGA-CV-7236 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7238    TCGA-CV-7242    TCGA-CV-7243    TCGA-CV-7245    TCGA-CV-7247 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7248    TCGA-CV-7250    TCGA-CV-7252    TCGA-CV-7253    TCGA-CV-7254 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7255    TCGA-CV-7261    TCGA-CV-7263    TCGA-CV-7406    TCGA-CV-7407 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7410    TCGA-CV-7411    TCGA-CV-7413    TCGA-CV-7414    TCGA-CV-7415 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7416    TCGA-CV-7418    TCGA-CV-7421    TCGA-CV-7422    TCGA-CV-7423 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7424    TCGA-CV-7425    TCGA-CV-7427    TCGA-CV-7429    TCGA-CV-7430 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7432    TCGA-CV-7433    TCGA-CV-7434    TCGA-CV-7435    TCGA-CV-7437 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-CV-7438    TCGA-CV-7440    TCGA-CX-7085    TCGA-CX-7086    TCGA-CX-7219 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D6-6515    TCGA-D6-6516    TCGA-D6-6517    TCGA-D6-6823    TCGA-D6-6824 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-D6-6825    TCGA-D6-6826    TCGA-D6-6827    TCGA-DQ-7591    TCGA-DQ-7592 
"B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" "B2M WILD-TYPE" 
   TCGA-IQ-7630    TCGA-IQ-7632 
"B2M WILD-TYPE" "B2M WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        4      1      1
  B2M WILD-TYPE    120     94     84
D16V5, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           4           120
  CLUS_2           1            94
  CLUS_3           1            84
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        1      1      4
  B2M WILD-TYPE     99     91    108
D16V6, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           1            99
  CLUS_2           1            91
  CLUS_3           4           108
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        0      5      2
  B2M WILD-TYPE     62    127    108
D16V7, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           0            62
  CLUS_2           5           127
  CLUS_3           2           108
D16V8, binary
               cls
clus              0   1
  B2M MUTATED     2   5
  B2M WILD-TYPE 122 175
[1] "tbl2"
               cls
clus            [,1] [,2]
  B2M MUTATED      2    5
  B2M WILD-TYPE  122  175
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           2           122
  CLUS_2           5           175
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        0      4      3
  B2M WILD-TYPE     41    122     98
D16V9, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           0            41
  CLUS_2           4           122
  CLUS_3           3            98
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  B2M MUTATED        2      5      0
  B2M WILD-TYPE     99    138     24
D16V10, multiclass
        clus
vv       B2M MUTATED B2M WILD-TYPE
  CLUS_1           2            99
  CLUS_2           5           138
  CLUS_3           0            24

Clustering(17) Variable = EP300 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EP300 MUTATED        7      3     12      2
  EP300 WILD-TYPE    107     65     91     15
D17V1, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             7             107
  CLUS_2             3              65
  CLUS_3            12              91
  CLUS_4             2              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EP300 MUTATED        2      2      4      5      6      4      1
  EP300 WILD-TYPE     40     54     60     39     32     43     14
D17V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EP300 MUTATED        3      2      4      4
  EP300 WILD-TYPE     52     50     31     62
D17V3, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             3              52
  CLUS_2             2              50
  CLUS_3             4              31
  CLUS_4             4              62
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        1      7      5
  EP300 WILD-TYPE     16     66    113
D17V4, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             1              16
  CLUS_2             7              66
  CLUS_3             5             113
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        5      5     14
  EP300 WILD-TYPE    119     90     71
D17V5, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             5             119
  CLUS_2             5              90
  CLUS_3            14              71
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        6     12      6
  EP300 WILD-TYPE     94     80    106
D17V6, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             6              94
  CLUS_2            12              80
  CLUS_3             6             106
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        7      8      8
  EP300 WILD-TYPE     55    124    102
D17V7, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             7              55
  CLUS_2             8             124
  CLUS_3             8             102
D17V8, binary
                 cls
clus                0   1
  EP300 MUTATED     7  16
  EP300 WILD-TYPE 117 164
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EP300 MUTATED      7   16
  EP300 WILD-TYPE  117  164
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             7             117
  CLUS_2            16             164
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        3     11      8
  EP300 WILD-TYPE     38    115     93
D17V9, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             3              38
  CLUS_2            11             115
  CLUS_3             8              93
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EP300 MUTATED        8     11      3
  EP300 WILD-TYPE     93    132     21
D17V10, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             8              93
  CLUS_2            11             132
  CLUS_3             3              21

Clustering(18) Variable = RHOA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHOA MUTATED        2      0      1      1
  RHOA WILD-TYPE    112     68    102     16
D18V1, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            2            112
  CLUS_2            0             68
  CLUS_3            1            102
  CLUS_4            1             16
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RHOA MUTATED        0      3      0      0      0      1      0
  RHOA WILD-TYPE     42     53     64     44     38     46     15
D18V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHOA MUTATED        0      0      0      3
  RHOA WILD-TYPE     55     52     35     63
D18V3, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            0             55
  CLUS_2            0             52
  CLUS_3            0             35
  CLUS_4            3             63
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        0      0      3
  RHOA WILD-TYPE     17     73    115
D18V4, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            0             17
  CLUS_2            0             73
  CLUS_3            3            115
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        1      2      1
  RHOA WILD-TYPE    123     93     84
D18V5, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            1            123
  CLUS_2            2             93
  CLUS_3            1             84
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        3      1      0
  RHOA WILD-TYPE     97     91    112
D18V6, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            3             97
  CLUS_2            1             91
  CLUS_3            0            112
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        2      0      2
  RHOA WILD-TYPE     60    132    108
D18V7, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            2             60
  CLUS_2            0            132
  CLUS_3            2            108
D18V8, binary
                cls
clus               0   1
  RHOA MUTATED     3   1
  RHOA WILD-TYPE 121 179
[1] "tbl2"
                cls
clus             [,1] [,2]
  RHOA MUTATED      3    1
  RHOA WILD-TYPE  121  179
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            3            121
  CLUS_2            1            179
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        1      0      3
  RHOA WILD-TYPE     40    126     98
D18V9, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            1             40
  CLUS_2            0            126
  CLUS_3            3             98
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHOA MUTATED        3      0      1
  RHOA WILD-TYPE     98    143     23
D18V10, multiclass
        clus
vv       RHOA MUTATED RHOA WILD-TYPE
  CLUS_1            3             98
  CLUS_2            0            143
  CLUS_3            1             23

Clustering(19) Variable = HLA-A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HLA-A MUTATED        3      0      4      2
  HLA-A WILD-TYPE    111     68     99     15
D19V1, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             3             111
  CLUS_2             0              68
  CLUS_3             4              99
  CLUS_4             2              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HLA-A MUTATED        0      1      2      1      4      1      0
  HLA-A WILD-TYPE     42     55     62     43     34     46     15
D19V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HLA-A MUTATED        1      1      1      2
  HLA-A WILD-TYPE     54     51     34     64
D19V3, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              54
  CLUS_2             1              51
  CLUS_3             1              34
  CLUS_4             2              64
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        1      1      3
  HLA-A WILD-TYPE     16     72    115
D19V4, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             1              16
  CLUS_2             1              72
  CLUS_3             3             115
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        3      1      5
  HLA-A WILD-TYPE    121     94     80
D19V5, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             3             121
  CLUS_2             1              94
  CLUS_3             5              80
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        2      4      3
  HLA-A WILD-TYPE     98     88    109
D19V6, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2              98
  CLUS_2             4              88
  CLUS_3             3             109
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        4      3      2
  HLA-A WILD-TYPE     58    129    108
D19V7, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             4              58
  CLUS_2             3             129
  CLUS_3             2             108
D19V8, binary
                 cls
clus                0   1
  HLA-A MUTATED     2   7
  HLA-A WILD-TYPE 122 173
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HLA-A MUTATED      2    7
  HLA-A WILD-TYPE  122  173
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2             122
  CLUS_2             7             173
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        2      5      2
  HLA-A WILD-TYPE     39    121     99
D19V9, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             2              39
  CLUS_2             5             121
  CLUS_3             2              99
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HLA-A MUTATED        3      6      0
  HLA-A WILD-TYPE     98    137     24
D19V10, multiclass
        clus
vv       HLA-A MUTATED HLA-A WILD-TYPE
  CLUS_1             3              98
  CLUS_2             6             137
  CLUS_3             0              24

Clustering(20) Variable = CTCF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCF MUTATED        2      2      7      0
  CTCF WILD-TYPE    112     66     96     17
D20V1, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            2            112
  CLUS_2            2             66
  CLUS_3            7             96
  CLUS_4            0             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CTCF MUTATED        3      1      0      1      5      1      0
  CTCF WILD-TYPE     39     55     64     43     33     46     15
D20V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCF MUTATED        2      2      0      4
  CTCF WILD-TYPE     53     50     35     62
D20V3, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            2             53
  CLUS_2            2             50
  CLUS_3            0             35
  CLUS_4            4             62
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        0      2      6
  CTCF WILD-TYPE     17     71    112
D20V4, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            0             17
  CLUS_2            2             71
  CLUS_3            6            112
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        4      2      5
  CTCF WILD-TYPE    120     93     80
D20V5, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            4            120
  CLUS_2            2             93
  CLUS_3            5             80
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        3      4      4
  CTCF WILD-TYPE     97     88    108
D20V6, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3             97
  CLUS_2            4             88
  CLUS_3            4            108
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        3      4      4
  CTCF WILD-TYPE     59    128    106
D20V7, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3             59
  CLUS_2            4            128
  CLUS_3            4            106
D20V8, binary
                cls
clus               0   1
  CTCF MUTATED     5   6
  CTCF WILD-TYPE 119 174
[1] "tbl2"
                cls
clus             [,1] [,2]
  CTCF MUTATED      5    6
  CTCF WILD-TYPE  119  174
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            5            119
  CLUS_2            6            174
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        0      5      5
  CTCF WILD-TYPE     41    121     96
D20V9, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            0             41
  CLUS_2            5            121
  CLUS_3            5             96
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        3      5      2
  CTCF WILD-TYPE     98    138     22
D20V10, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3             98
  CLUS_2            5            138
  CLUS_3            2             22

Clustering(21) Variable = RB1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        0      6      4      0
  RB1 WILD-TYPE    114     62     99     17
D21V1, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           0           114
  CLUS_2           6            62
  CLUS_3           4            99
  CLUS_4           0            17
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RB1 MUTATED        3      0      2      3      1      1      0
  RB1 WILD-TYPE     39     56     62     41     37     46     15
D21V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        0      1      0      3
  RB1 WILD-TYPE     55     51     35     63
D21V3, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           0            55
  CLUS_2           1            51
  CLUS_3           0            35
  CLUS_4           3            63
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        1      0      3
  RB1 WILD-TYPE     16     73    115
D21V4, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            16
  CLUS_2           0            73
  CLUS_3           3           115
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        8      1      1
  RB1 WILD-TYPE    116     94     84
D21V5, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           8           116
  CLUS_2           1            94
  CLUS_3           1            84
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        3      1      6
  RB1 WILD-TYPE     97     91    106
D21V6, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            97
  CLUS_2           1            91
  CLUS_3           6           106
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        0      7      3
  RB1 WILD-TYPE     62    125    107
D21V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           0            62
  CLUS_2           7           125
  CLUS_3           3           107
D21V8, binary
               cls
clus              0   1
  RB1 MUTATED     4   6
  RB1 WILD-TYPE 120 174
[1] "tbl2"
               cls
clus            [,1] [,2]
  RB1 MUTATED      4    6
  RB1 WILD-TYPE  120  174
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4           120
  CLUS_2           6           174
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        0      6      3
  RB1 WILD-TYPE     41    120     98
D21V9, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           0            41
  CLUS_2           6           120
  CLUS_3           3            98
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        3      6      0
  RB1 WILD-TYPE     98    137     24
D21V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            98
  CLUS_2           6           137
  CLUS_3           0            24

Clustering(22) Variable = CSMD3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSMD3 MUTATED       28     23     12      7
  CSMD3 WILD-TYPE     86     45     91     10
D22V1, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            28              86
  CLUS_2            23              45
  CLUS_3            12              91
  CLUS_4             7              10
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CSMD3 MUTATED       20      8     19     11      4      5      3
  CSMD3 WILD-TYPE     22     48     45     33     34     42     12
D22V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSMD3 MUTATED       15     18      8      7
  CSMD3 WILD-TYPE     40     34     27     59
D22V3, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            15              40
  CLUS_2            18              34
  CLUS_3             8              27
  CLUS_4             7              59
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED        6     20     22
  CSMD3 WILD-TYPE     11     53     96
D22V4, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1             6              11
  CLUS_2            20              53
  CLUS_3            22              96
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED       45      9     16
  CSMD3 WILD-TYPE     79     86     69
D22V5, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            45              79
  CLUS_2             9              86
  CLUS_3            16              69
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED        9     18     43
  CSMD3 WILD-TYPE     91     74     69
D22V6, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1             9              91
  CLUS_2            18              74
  CLUS_3            43              69
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED       14     43     13
  CSMD3 WILD-TYPE     48     89     97
D22V7, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            14              48
  CLUS_2            43              89
  CLUS_3            13              97
D22V8, binary
                 cls
clus                0   1
  CSMD3 MUTATED    17  53
  CSMD3 WILD-TYPE 107 127
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CSMD3 MUTATED     17   53
  CSMD3 WILD-TYPE  107  127
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            17             107
  CLUS_2            53             127
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED        8     38     11
  CSMD3 WILD-TYPE     33     88     90
D22V9, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1             8              33
  CLUS_2            38              88
  CLUS_3            11              90
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CSMD3 MUTATED       10     41      6
  CSMD3 WILD-TYPE     91    102     18
D22V10, multiclass
        clus
vv       CSMD3 MUTATED CSMD3 WILD-TYPE
  CLUS_1            10              91
  CLUS_2            41             102
  CLUS_3             6              18

Clustering(23) Variable = TGFBR2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGFBR2 MUTATED        1      3      6      0
  TGFBR2 WILD-TYPE    113     65     97     17
D23V1, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              1              113
  CLUS_2              3               65
  CLUS_3              6               97
  CLUS_4              0               17
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TGFBR2 MUTATED        3      0      0      0      4      3      0
  TGFBR2 WILD-TYPE     39     56     64     44     34     44     15
D23V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGFBR2 MUTATED        3      1      0      4
  TGFBR2 WILD-TYPE     52     51     35     62
D23V3, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              3               52
  CLUS_2              1               51
  CLUS_3              0               35
  CLUS_4              4               62
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        0      3      5
  TGFBR2 WILD-TYPE     17     70    113
D23V4, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              0               17
  CLUS_2              3               70
  CLUS_3              5              113
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        2      3      5
  TGFBR2 WILD-TYPE    122     92     80
D23V5, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              2              122
  CLUS_2              3               92
  CLUS_3              5               80
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        4      3      3
  TGFBR2 WILD-TYPE     96     89    109
D23V6, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              3               89
  CLUS_3              3              109
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        2      4      4
  TGFBR2 WILD-TYPE     60    128    106
D23V7, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              4              128
  CLUS_3              4              106
D23V8, binary
                  cls
clus                 0   1
  TGFBR2 MUTATED     4   6
  TGFBR2 WILD-TYPE 120 174
[1] "tbl2"
                  cls
clus               [,1] [,2]
  TGFBR2 MUTATED      4    6
  TGFBR2 WILD-TYPE  120  174
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              4              120
  CLUS_2              6              174
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        1      3      5
  TGFBR2 WILD-TYPE     40    123     96
D23V9, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              3              123
  CLUS_3              5               96
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR2 MUTATED        4      2      3
  TGFBR2 WILD-TYPE     97    141     21
D23V10, multiclass
        clus
vv       TGFBR2 MUTATED TGFBR2 WILD-TYPE
  CLUS_1              4               97
  CLUS_2              2              141
  CLUS_3              3               21

Clustering(24) Variable = NECAB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NECAB1 MUTATED        2      1      3      0
  NECAB1 WILD-TYPE    112     67    100     17
D24V1, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              2              112
  CLUS_2              1               67
  CLUS_3              3              100
  CLUS_4              0               17
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NECAB1 MUTATED        2      0      0      1      2      0      1
  NECAB1 WILD-TYPE     40     56     64     43     36     47     14
D24V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NECAB1 MUTATED        1      0      1      1
  NECAB1 WILD-TYPE     54     52     34     65
D24V3, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              0               52
  CLUS_3              1               34
  CLUS_4              1               65
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NECAB1 MUTATED        0      2      1
  NECAB1 WILD-TYPE     17     71    117
D24V4, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              0               17
  CLUS_2              2               71
  CLUS_3              1              117
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NECAB1 MUTATED        2      0      4
  NECAB1 WILD-TYPE    122     95     81
D24V5, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              2              122
  CLUS_2              0               95
  CLUS_3              4               81
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NECAB1 MUTATED        0      4      2
  NECAB1 WILD-TYPE    100     88    110
D24V6, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              0              100
  CLUS_2              4               88
  CLUS_3              2              110
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NECAB1 MUTATED        2      3      1
  NECAB1 WILD-TYPE     60    129    109
D24V7, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              2               60
  CLUS_2              3              129
  CLUS_3              1              109
D24V8, binary
                  cls
clus                 0   1
  NECAB1 MUTATED     1   5
  NECAB1 WILD-TYPE 123 175
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NECAB1 MUTATED      1    5
  NECAB1 WILD-TYPE  123  175
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              1              123
  CLUS_2              5              175
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NECAB1 MUTATED        1      4      1
  NECAB1 WILD-TYPE     40    122    100
D24V9, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              1               40
  CLUS_2              4              122
  CLUS_3              1              100
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NECAB1 MUTATED        1      4      1
  NECAB1 WILD-TYPE    100    139     23
D24V10, multiclass
        clus
vv       NECAB1 MUTATED NECAB1 WILD-TYPE
  CLUS_1              1              100
  CLUS_2              4              139
  CLUS_3              1               23

Clustering(25) Variable = MAPK1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAPK1 MUTATED        0      1      2      1
  MAPK1 WILD-TYPE    114     67    101     16
D25V1, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             0             114
  CLUS_2             1              67
  CLUS_3             2             101
  CLUS_4             1              16
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MAPK1 MUTATED        0      0      1      1      1      1      0
  MAPK1 WILD-TYPE     42     56     63     43     37     46     15
D25V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAPK1 MUTATED        1      1      1      1
  MAPK1 WILD-TYPE     54     51     34     65
D25V3, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             1              51
  CLUS_3             1              34
  CLUS_4             1              65
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK1 MUTATED        0      2      2
  MAPK1 WILD-TYPE     17     71    116
D25V4, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             0              17
  CLUS_2             2              71
  CLUS_3             2             116
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK1 MUTATED        1      1      2
  MAPK1 WILD-TYPE    123     94     83
D25V5, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             1             123
  CLUS_2             1              94
  CLUS_3             2              83
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK1 MUTATED        1      2      1
  MAPK1 WILD-TYPE     99     90    111
D25V6, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             2              90
  CLUS_3             1             111
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK1 MUTATED        2      1      1
  MAPK1 WILD-TYPE     60    131    109
D25V7, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             1             131
  CLUS_3             1             109
D25V8, binary
                 cls
clus                0   1
  MAPK1 MUTATED     2   2
  MAPK1 WILD-TYPE 122 178
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MAPK1 MUTATED      2    2
  MAPK1 WILD-TYPE  122  178
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             2             122
  CLUS_2             2             178
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK1 MUTATED        1      1      2
  MAPK1 WILD-TYPE     40    125     99
D25V9, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             1             125
  CLUS_3             2              99
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MAPK1 MUTATED        1      2      1
  MAPK1 WILD-TYPE    100    141     23
D25V10, multiclass
        clus
vv       MAPK1 MUTATED MAPK1 WILD-TYPE
  CLUS_1             1             100
  CLUS_2             2             141
  CLUS_3             1              23

Clustering(26) Variable = EPB41L3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPB41L3 MUTATED        4      7      3      2
  EPB41L3 WILD-TYPE    110     61    100     15
D26V1, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               4               110
  CLUS_2               7                61
  CLUS_3               3               100
  CLUS_4               2                15
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EPB41L3 MUTATED        6      1      6      0      1      2      0
  EPB41L3 WILD-TYPE     36     55     58     44     37     45     15
D26V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPB41L3 MUTATED        1      3      2      4
  EPB41L3 WILD-TYPE     54     49     33     62
D26V3, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               1                54
  CLUS_2               3                49
  CLUS_3               2                33
  CLUS_4               4                62
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EPB41L3 MUTATED        0      1      9
  EPB41L3 WILD-TYPE     17     72    109
D26V4, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               0                17
  CLUS_2               1                72
  CLUS_3               9               109
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EPB41L3 MUTATED       11      2      3
  EPB41L3 WILD-TYPE    113     93     82
D26V5, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1              11               113
  CLUS_2               2                93
  CLUS_3               3                82
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EPB41L3 MUTATED        2      2     12
  EPB41L3 WILD-TYPE     98     90    100
D26V6, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               2                98
  CLUS_2               2                90
  CLUS_3              12               100
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EPB41L3 MUTATED        3     10      3
  EPB41L3 WILD-TYPE     59    122    107
D26V7, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               3                59
  CLUS_2              10               122
  CLUS_3               3               107
D26V8, binary
                   cls
clus                  0   1
  EPB41L3 MUTATED     3  13
  EPB41L3 WILD-TYPE 121 167
[1] "tbl2"
                   cls
clus                [,1] [,2]
  EPB41L3 MUTATED      3   13
  EPB41L3 WILD-TYPE  121  167
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               3               121
  CLUS_2              13               167
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EPB41L3 MUTATED        2     10      2
  EPB41L3 WILD-TYPE     39    116     99
D26V9, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               2                39
  CLUS_2              10               116
  CLUS_3               2                99
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  EPB41L3 MUTATED        3     10      1
  EPB41L3 WILD-TYPE     98    133     23
D26V10, multiclass
        clus
vv       EPB41L3 MUTATED EPB41L3 WILD-TYPE
  CLUS_1               3                98
  CLUS_2              10               133
  CLUS_3               1                23

Clustering(27) Variable = RAC1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAC1 MUTATED        1      1      7      0
  RAC1 WILD-TYPE    113     67     96     17
D27V1, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            1            113
  CLUS_2            1             67
  CLUS_3            7             96
  CLUS_4            0             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RAC1 MUTATED        0      1      1      1      2      3      1
  RAC1 WILD-TYPE     42     55     63     43     36     44     14
D27V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAC1 MUTATED        1      1      1      1
  RAC1 WILD-TYPE     54     51     34     65
D27V3, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            1             54
  CLUS_2            1             51
  CLUS_3            1             34
  CLUS_4            1             65
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAC1 MUTATED        0      2      2
  RAC1 WILD-TYPE     17     71    116
D27V4, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            0             17
  CLUS_2            2             71
  CLUS_3            2            116
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAC1 MUTATED        3      1      5
  RAC1 WILD-TYPE    121     94     80
D27V5, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            3            121
  CLUS_2            1             94
  CLUS_3            5             80
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAC1 MUTATED        1      5      3
  RAC1 WILD-TYPE     99     87    109
D27V6, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            1             99
  CLUS_2            5             87
  CLUS_3            3            109
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAC1 MUTATED        2      6      1
  RAC1 WILD-TYPE     60    126    109
D27V7, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            6            126
  CLUS_3            1            109
D27V8, binary
                cls
clus               0   1
  RAC1 MUTATED     1   8
  RAC1 WILD-TYPE 123 172
[1] "tbl2"
                cls
clus             [,1] [,2]
  RAC1 MUTATED      1    8
  RAC1 WILD-TYPE  123  172
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            1            123
  CLUS_2            8            172
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAC1 MUTATED        1      5      1
  RAC1 WILD-TYPE     40    121    100
D27V9, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            1             40
  CLUS_2            5            121
  CLUS_3            1            100
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAC1 MUTATED        1      6      0
  RAC1 WILD-TYPE    100    137     24
D27V10, multiclass
        clus
vv       RAC1 MUTATED RAC1 WILD-TYPE
  CLUS_1            1            100
  CLUS_2            6            137
  CLUS_3            0             24

Clustering(28) Variable = CUL3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUL3 MUTATED        3      5      2      0
  CUL3 WILD-TYPE    111     63    101     17
D28V1, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            3            111
  CLUS_2            5             63
  CLUS_3            2            101
  CLUS_4            0             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CUL3 MUTATED        3      1      5      0      0      1      0
  CUL3 WILD-TYPE     39     55     59     44     38     46     15
D28V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUL3 MUTATED        2      4      0      2
  CUL3 WILD-TYPE     53     48     35     64
D28V3, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            2             53
  CLUS_2            4             48
  CLUS_3            0             35
  CLUS_4            2             64
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL3 MUTATED        2      2      4
  CUL3 WILD-TYPE     15     71    114
D28V4, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            2             15
  CLUS_2            2             71
  CLUS_3            4            114
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL3 MUTATED        5      4      1
  CUL3 WILD-TYPE    119     91     84
D28V5, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            5            119
  CLUS_2            4             91
  CLUS_3            1             84
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL3 MUTATED        4      2      4
  CUL3 WILD-TYPE     96     90    108
D28V6, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            4             96
  CLUS_2            2             90
  CLUS_3            4            108
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL3 MUTATED        2      5      3
  CUL3 WILD-TYPE     60    127    107
D28V7, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            2             60
  CLUS_2            5            127
  CLUS_3            3            107
D28V8, binary
                cls
clus               0   1
  CUL3 MUTATED     6   4
  CUL3 WILD-TYPE 118 176
[1] "tbl2"
                cls
clus             [,1] [,2]
  CUL3 MUTATED      6    4
  CUL3 WILD-TYPE  118  176
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            6            118
  CLUS_2            4            176
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL3 MUTATED        3      3      2
  CUL3 WILD-TYPE     38    123     99
D28V9, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            3             38
  CLUS_2            3            123
  CLUS_3            2             99
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL3 MUTATED        5      3      0
  CUL3 WILD-TYPE     96    140     24
D28V10, multiclass
        clus
vv       CUL3 MUTATED CUL3 WILD-TYPE
  CLUS_1            5             96
  CLUS_2            3            140
  CLUS_3            0             24

Clustering(29) Variable = PRB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRB1 MUTATED        5      2      0      0
  PRB1 WILD-TYPE    109     66    103     17
D29V1, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            5            109
  CLUS_2            2             66
  CLUS_3            0            103
  CLUS_4            0             17
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PRB1 MUTATED        3      1      3      0      0      0      0
  PRB1 WILD-TYPE     39     55     61     44     38     47     15
D29V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRB1 MUTATED        2      1      0      0
  PRB1 WILD-TYPE     53     51     35     66
D29V3, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            2             53
  CLUS_2            1             51
  CLUS_3            0             35
  CLUS_4            0             66
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB1 MUTATED        0      2      1
  PRB1 WILD-TYPE     17     71    117
D29V4, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            0             17
  CLUS_2            2             71
  CLUS_3            1            117
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB1 MUTATED        3      3      1
  PRB1 WILD-TYPE    121     92     84
D29V5, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            3            121
  CLUS_2            3             92
  CLUS_3            1             84
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB1 MUTATED        2      1      4
  PRB1 WILD-TYPE     98     91    108
D29V6, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            2             98
  CLUS_2            1             91
  CLUS_3            4            108
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB1 MUTATED        3      3      1
  PRB1 WILD-TYPE     59    129    109
D29V7, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            3             59
  CLUS_2            3            129
  CLUS_3            1            109
D29V8, binary
                cls
clus               0   1
  PRB1 MUTATED     3   4
  PRB1 WILD-TYPE 121 176
[1] "tbl2"
                cls
clus             [,1] [,2]
  PRB1 MUTATED      3    4
  PRB1 WILD-TYPE  121  176
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            3            121
  CLUS_2            4            176
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB1 MUTATED        2      4      0
  PRB1 WILD-TYPE     39    122    101
D29V9, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            2             39
  CLUS_2            4            122
  CLUS_3            0            101
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB1 MUTATED        3      2      1
  PRB1 WILD-TYPE     98    141     23
D29V10, multiclass
        clus
vv       PRB1 MUTATED PRB1 WILD-TYPE
  CLUS_1            3             98
  CLUS_2            2            141
  CLUS_3            1             23

Clustering(30) Variable = TRPV4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRPV4 MUTATED        4      2      1      0
  TRPV4 WILD-TYPE    110     66    102     17
D30V1, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             4             110
  CLUS_2             2              66
  CLUS_3             1             102
  CLUS_4             0              17
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TRPV4 MUTATED        0      2      2      1      1      1      0
  TRPV4 WILD-TYPE     42     54     62     43     37     46     15
D30V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRPV4 MUTATED        2      1      1      2
  TRPV4 WILD-TYPE     53     51     34     64
D30V3, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             2              53
  CLUS_2             1              51
  CLUS_3             1              34
  CLUS_4             2              64
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV4 MUTATED        0      2      4
  TRPV4 WILD-TYPE     17     71    114
D30V4, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             0              17
  CLUS_2             2              71
  CLUS_3             4             114
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV4 MUTATED        3      1      3
  TRPV4 WILD-TYPE    121     94     82
D30V5, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             3             121
  CLUS_2             1              94
  CLUS_3             3              82
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV4 MUTATED        1      4      2
  TRPV4 WILD-TYPE     99     88    110
D30V6, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             4              88
  CLUS_3             2             110
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV4 MUTATED        1      5      1
  TRPV4 WILD-TYPE     61    127    109
D30V7, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             5             127
  CLUS_3             1             109
D30V8, binary
                 cls
clus                0   1
  TRPV4 MUTATED     1   6
  TRPV4 WILD-TYPE 123 174
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TRPV4 MUTATED      1    6
  TRPV4 WILD-TYPE  123  174
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             1             123
  CLUS_2             6             174
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV4 MUTATED        0      4      3
  TRPV4 WILD-TYPE     41    122     98
D30V9, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             4             122
  CLUS_3             3              98
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRPV4 MUTATED        1      5      1
  TRPV4 WILD-TYPE    100    138     23
D30V10, multiclass
        clus
vv       TRPV4 MUTATED TRPV4 WILD-TYPE
  CLUS_1             1             100
  CLUS_2             5             138
  CLUS_3             1              23

Clustering(31) Variable = EPDR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPDR1 MUTATED        4      1      1      0
  EPDR1 WILD-TYPE    110     67    102     17
D31V1, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             4             110
  CLUS_2             1              67
  CLUS_3             1             102
  CLUS_4             0              17
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EPDR1 MUTATED        0      3      2      0      0      1      0
  EPDR1 WILD-TYPE     42     53     62     44     38     46     15
D31V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPDR1 MUTATED        1      1      0      3
  EPDR1 WILD-TYPE     54     51     35     63
D31V3, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             1              51
  CLUS_3             0              35
  CLUS_4             3              63
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPDR1 MUTATED        0      1      4
  EPDR1 WILD-TYPE     17     72    114
D31V4, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             0              17
  CLUS_2             1              72
  CLUS_3             4             114
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPDR1 MUTATED        3      3      0
  EPDR1 WILD-TYPE    121     92     85
D31V5, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             3             121
  CLUS_2             3              92
  CLUS_3             0              85
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPDR1 MUTATED        3      1      2
  EPDR1 WILD-TYPE     97     91    110
D31V6, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             3              97
  CLUS_2             1              91
  CLUS_3             2             110
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPDR1 MUTATED        1      3      2
  EPDR1 WILD-TYPE     61    129    108
D31V7, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             1              61
  CLUS_2             3             129
  CLUS_3             2             108
D31V8, binary
                 cls
clus                0   1
  EPDR1 MUTATED     3   3
  EPDR1 WILD-TYPE 121 177
[1] "tbl2"
                 cls
clus              [,1] [,2]
  EPDR1 MUTATED      3    3
  EPDR1 WILD-TYPE  121  177
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             3             121
  CLUS_2             3             177
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPDR1 MUTATED        2      1      3
  EPDR1 WILD-TYPE     39    125     98
D31V9, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             2              39
  CLUS_2             1             125
  CLUS_3             3              98
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  EPDR1 MUTATED        2      4      0
  EPDR1 WILD-TYPE     99    139     24
D31V10, multiclass
        clus
vv       EPDR1 MUTATED EPDR1 WILD-TYPE
  CLUS_1             2              99
  CLUS_2             4             139
  CLUS_3             0              24

Clustering(32) Variable = SLC26A7 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A7 MUTATED        4      2      2      0
  SLC26A7 WILD-TYPE    110     66    101     17
D32V1, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               4               110
  CLUS_2               2                66
  CLUS_3               2               101
  CLUS_4               0                17
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC26A7 MUTATED        1      0      2      0      2      2      1
  SLC26A7 WILD-TYPE     41     56     62     44     36     45     14
D32V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A7 MUTATED        1      2      1      0
  SLC26A7 WILD-TYPE     54     50     34     66
D32V3, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               1                54
  CLUS_2               2                50
  CLUS_3               1                34
  CLUS_4               0                66
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        0      3      1
  SLC26A7 WILD-TYPE     17     70    117
D32V4, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               0                17
  CLUS_2               3                70
  CLUS_3               1               117
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        2      1      5
  SLC26A7 WILD-TYPE    122     94     80
D32V5, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               2               122
  CLUS_2               1                94
  CLUS_3               5                80
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        1      4      3
  SLC26A7 WILD-TYPE     99     88    109
D32V6, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               1                99
  CLUS_2               4                88
  CLUS_3               3               109
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        2      4      2
  SLC26A7 WILD-TYPE     60    128    108
D32V7, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               2                60
  CLUS_2               4               128
  CLUS_3               2               108
D32V8, binary
                   cls
clus                  0   1
  SLC26A7 MUTATED     2   6
  SLC26A7 WILD-TYPE 122 174
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC26A7 MUTATED      2    6
  SLC26A7 WILD-TYPE  122  174
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               2               122
  CLUS_2               6               174
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        2      3      2
  SLC26A7 WILD-TYPE     39    123     99
D32V9, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               2                39
  CLUS_2               3               123
  CLUS_3               2                99
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A7 MUTATED        2      3      2
  SLC26A7 WILD-TYPE     99    140     22
D32V10, multiclass
        clus
vv       SLC26A7 MUTATED SLC26A7 WILD-TYPE
  CLUS_1               2                99
  CLUS_2               3               140
  CLUS_3               2                22

Clustering(33) Variable = KCNA3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNA3 MUTATED        1      3      4      0
  KCNA3 WILD-TYPE    113     65     99     17
D33V1, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             1             113
  CLUS_2             3              65
  CLUS_3             4              99
  CLUS_4             0              17
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KCNA3 MUTATED        2      1      2      0      1      2      0
  KCNA3 WILD-TYPE     40     55     62     44     37     45     15
D33V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCNA3 MUTATED        4      1      0      0
  KCNA3 WILD-TYPE     51     51     35     66
D33V3, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             4              51
  CLUS_2             1              51
  CLUS_3             0              35
  CLUS_4             0              66
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNA3 MUTATED        0      3      2
  KCNA3 WILD-TYPE     17     70    116
D33V4, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             0              17
  CLUS_2             3              70
  CLUS_3             2             116
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNA3 MUTATED        4      1      3
  KCNA3 WILD-TYPE    120     94     82
D33V5, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             4             120
  CLUS_2             1              94
  CLUS_3             3              82
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNA3 MUTATED        1      3      4
  KCNA3 WILD-TYPE     99     89    108
D33V6, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             1              99
  CLUS_2             3              89
  CLUS_3             4             108
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNA3 MUTATED        2      4      2
  KCNA3 WILD-TYPE     60    128    108
D33V7, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             2              60
  CLUS_2             4             128
  CLUS_3             2             108
D33V8, binary
                 cls
clus                0   1
  KCNA3 MUTATED     2   6
  KCNA3 WILD-TYPE 122 174
[1] "tbl2"
                 cls
clus              [,1] [,2]
  KCNA3 MUTATED      2    6
  KCNA3 WILD-TYPE  122  174
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             2             122
  CLUS_2             6             174
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNA3 MUTATED        0      4      2
  KCNA3 WILD-TYPE     41    122     99
D33V9, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             4             122
  CLUS_3             2              99
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCNA3 MUTATED        0      6      0
  KCNA3 WILD-TYPE    101    137     24
D33V10, multiclass
        clus
vv       KCNA3 MUTATED KCNA3 WILD-TYPE
  CLUS_1             0             101
  CLUS_2             6             137
  CLUS_3             0              24

Clustering(34) Variable = HIST1H1B MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H1B MUTATED        3      0      4      0
  HIST1H1B WILD-TYPE    111     68     99     17
D34V1, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                3                111
  CLUS_2                0                 68
  CLUS_3                4                 99
  CLUS_4                0                 17
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HIST1H1B MUTATED        0      0      3      0      4      0      0
  HIST1H1B WILD-TYPE     42     56     61     44     34     47     15
D34V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST1H1B MUTATED        1      2      1      2
  HIST1H1B WILD-TYPE     54     50     34     64
D34V3, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                1                 54
  CLUS_2                2                 50
  CLUS_3                1                 34
  CLUS_4                2                 64
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        0      1      5
  HIST1H1B WILD-TYPE     17     72    113
D34V4, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                0                 17
  CLUS_2                1                 72
  CLUS_3                5                113
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        2      2      3
  HIST1H1B WILD-TYPE    122     93     82
D34V5, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                2                122
  CLUS_2                2                 93
  CLUS_3                3                 82
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        2      4      1
  HIST1H1B WILD-TYPE     98     88    111
D34V6, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                2                 98
  CLUS_2                4                 88
  CLUS_3                1                111
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        2      3      2
  HIST1H1B WILD-TYPE     60    129    108
D34V7, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                2                 60
  CLUS_2                3                129
  CLUS_3                2                108
D34V8, binary
                    cls
clus                   0   1
  HIST1H1B MUTATED     2   5
  HIST1H1B WILD-TYPE 122 175
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  HIST1H1B MUTATED      2    5
  HIST1H1B WILD-TYPE  122  175
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                2                122
  CLUS_2                5                175
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        1      3      3
  HIST1H1B WILD-TYPE     40    123     98
D34V9, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                1                 40
  CLUS_2                3                123
  CLUS_3                3                 98
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HIST1H1B MUTATED        1      3      3
  HIST1H1B WILD-TYPE    100    140     21
D34V10, multiclass
        clus
vv       HIST1H1B MUTATED HIST1H1B WILD-TYPE
  CLUS_1                1                100
  CLUS_2                3                140
  CLUS_3                3                 21

Clustering(35) Variable = STEAP4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STEAP4 MUTATED        4      4      2      0
  STEAP4 WILD-TYPE    110     64    101     17
D35V1, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              4              110
  CLUS_2              4               64
  CLUS_3              2              101
  CLUS_4              0               17
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  STEAP4 MUTATED        2      1      4      1      0      2      0
  STEAP4 WILD-TYPE     40     55     60     43     38     45     15
D35V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STEAP4 MUTATED        1      4      0      1
  STEAP4 WILD-TYPE     54     48     35     65
D35V3, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              4               48
  CLUS_3              0               35
  CLUS_4              1               65
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STEAP4 MUTATED        2      1      3
  STEAP4 WILD-TYPE     15     72    115
D35V4, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              2               15
  CLUS_2              1               72
  CLUS_3              3              115
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STEAP4 MUTATED        6      4      0
  STEAP4 WILD-TYPE    118     91     85
D35V5, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              6              118
  CLUS_2              4               91
  CLUS_3              0               85
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STEAP4 MUTATED        4      1      5
  STEAP4 WILD-TYPE     96     91    107
D35V6, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              4               96
  CLUS_2              1               91
  CLUS_3              5              107
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STEAP4 MUTATED        0      6      4
  STEAP4 WILD-TYPE     62    126    106
D35V7, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              0               62
  CLUS_2              6              126
  CLUS_3              4              106
D35V8, binary
                  cls
clus                 0   1
  STEAP4 MUTATED     5   5
  STEAP4 WILD-TYPE 119 175
[1] "tbl2"
                  cls
clus               [,1] [,2]
  STEAP4 MUTATED      5    5
  STEAP4 WILD-TYPE  119  175
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              5              119
  CLUS_2              5              175
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STEAP4 MUTATED        0      6      4
  STEAP4 WILD-TYPE     41    120     97
D35V9, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              0               41
  CLUS_2              6              120
  CLUS_3              4               97
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STEAP4 MUTATED        4      6      0
  STEAP4 WILD-TYPE     97    137     24
D35V10, multiclass
        clus
vv       STEAP4 MUTATED STEAP4 WILD-TYPE
  CLUS_1              4               97
  CLUS_2              6              137
  CLUS_3              0               24
> q(save="no")
