
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/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.84.4098/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.84.4098/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/KIRP-TP/2709428/1.GDAC_mergedClustering.Finished/KIRP-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/KIRP-TP/2587662/1.GDAC_clinicalDataPicker.Finished/KIRP-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=103, in cluster file=117, common to both=103
[1]   8 103
[1] "MRNA_CNMF"
[1] 3
1 2 
7 9 
1 2 
7 9 
[1] "MRNA_CHIERARCHICAL"
[1] 3
1 2 3 
4 7 5 
1 2 3 
4 7 5 
[1] "CN_CNMF"
[1] 3
 1  2  3  4 
21 16 25 41 
 1  2  3  4 
21 16 25 41 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
21 26 38 
 1  2  3 
21 26 38 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3 
26 23 25 
 1  2  3 
26 23 25 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
18 36 20 
 1  2  3 
18 36 20 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3  4 
24 34 29 16 
 1  2  3  4 
24 34 29 16 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
 1  2  3  4 
24 40 11 28 
 1  2  3  4 
24 40 11 28 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "KARNOFSKYPERFORMANCESCORE"             
[11] "HISTOLOGICALTYPE"                      
[12] "PATHOLOGICSPREAD(PT)"                  
[13] "PATHOLOGICSPREAD(PN)"                  
[14] "PATHOLOGICSPREAD(M)"                   
[15] "TUMORSTAGE"                            
[16] "RADIATIONS.RADIATION.REGIMENINDICATION"
[17] "NUMBERPACKYEARSSMOKED"                 
[18] "STOPPEDSMOKINGYEAR"                    
[19] "TOBACCOSMOKINGHISTORYINDICATOR"        
[20] "YEAROFTOBACCOSMOKINGONSET"             
[21] "BATCHNUMBER"                           

Input Data has 21 rows and 103 columns.

[1] "Batch" "21"   
[1] "Last Follow UP"
TCGA-A4-7286 TCGA-A4-7287 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7584 TCGA-A4-7585 
           1           21          485            3           NA           NA 
TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7828 TCGA-A4-7915 TCGA-A4-7996 TCGA-A4-8098 
           1           27           NA            7           49          140 
TCGA-AL-3466 TCGA-AL-3467 TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-AL-3473 
         293         1778         1636          412          922          763 
TCGA-AL-7173 TCGA-B1-5398 TCGA-B1-7332 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 
        1357          336          223          109          125          179 
TCGA-B3-4104 TCGA-B3-8121 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 
         135          147         1536           21          329           92 
TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-BQ-5875 
          14           33           19          196           36         2638 
TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 TCGA-BQ-5879 TCGA-BQ-5880 TCGA-BQ-5881 
         585          269         1938          697         1313         1454 
TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5887 
         658         1242          792          921          792          771 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-5893 
         403          329          232           29          364          240 
TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7048 TCGA-BQ-7049 
          84         3759           NA         2948         2839           NA 
TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-BQ-7058 
        1864         1532         1516          799          612           NA 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 
         232          213          217          115          353          414 
TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7838 TCGA-DW-7839 TCGA-DW-7840 
        3950         1093         1142          744          418          114 
TCGA-DW-7841 TCGA-DW-7842 TCGA-DZ-6131 TCGA-DZ-6132 TCGA-DZ-6133 TCGA-DZ-6134 
         445           92         2428         2459         1556         1856 
TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-EV-5903 TCGA-G7-6789 TCGA-G7-6790 
        1669          471          178          160          208          977 
TCGA-G7-6792 TCGA-G7-6793 TCGA-G7-6795 TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7502 
        1257           NA          928         1059          387          428 
TCGA-GL-6846 TCGA-GL-7773 TCGA-GL-7966 TCGA-HE-7128 TCGA-HE-7129 TCGA-HE-7130 
        5558           NA          112           NA           NA           NA 
TCGA-J7-6720 
          NA 
Variable 1:'AGE':	nDistinctValues=39,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=14,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=86,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=39,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=4,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'HISTOLOGICAL.TYPE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'PATHOLOGY.T':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'PATHOLOGY.N':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'PATHOLOGICSPREAD(M)':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'TUMOR.STAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 17:'NUMBERPACKYEARSSMOKED':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 18:'STOPPEDSMOKINGYEAR':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 19:'TOBACCOSMOKINGHISTORYINDICATOR':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 20:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 21:'BATCH.NUMBER':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                         "GENDER"                     
[3] "KARNOFSKY.PERFORMANCE.SCORE" "PATHOLOGY.T"                
[5] "PATHOLOGY.N"                 "PATHOLOGICSPREAD(M)"        
[7] "TUMOR.STAGE"                
[1] "TUMOR.?STAGE" "7"           
[1] "stage2"
vv
 1  2  3  4 
53  7 23  9 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "4"          
[1] "PATHOLOGY.N" "5"          
Output Data has 103 columns, 1 survival variables, and 7 non-survival variables.
AGE, nv=39, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=4, binary=FALSE, numeric=TRUE
PATHOLOGY.T, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
T1 T2 T3 T4 
58 13 31  1 
[1] "table(vv)"
vv
   T1    T2 T3+T4 
   58    13    32 
$ClinVariableName
[1] "PATHOLOGY.T"

$Table
vv
T1 T2 T3 T4 
58 13 31  1 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   T1    T2 T3+T4 
   58    13    32 
PATHOLOGY.N, nv=3, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
N0 N1 N2 
20 11  4 
[1] "table(vv)"
vv
N0 N1 N2 
20 11  4 
$ClinVariableName
[1] "PATHOLOGY.N"

$Table
vv
N0 N1 N2 
20 11  4 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


N0 N1 N2 
20 11  4 
PATHOLOGICSPREAD(M), nv=3, binary=FALSE, numeric=FALSE
TUMOR.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('TUMOR.?STAGE$',vnm)"
vv
  I  II III  IV 
 53   7  23   9 
[1] "table(vv)"
vv
  I  II III  IV 
 53   7  23   9 
$ClinVariableName
[1] "TUMOR.STAGE"

$Table
vv
  I  II III  IV 
 53   7  23   9 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


  I  II III  IV 
 53   7  23   9 

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2      0 1
  subtype1 6 1
  subtype2 8 1
subtype1 subtype2 
       7        9 
subtype1 subtype2 
       1        1 
$subtype1
TCGA-AL-3466 TCGA-AL-3468 TCGA-AL-3473 TCGA-B3-3925 TCGA-B3-4103 TCGA-B9-4114 
        9.63        53.79        25.08         3.58         5.88         0.69 
TCGA-B9-4117 
        0.46 

$subtype2
TCGA-AL-3467 TCGA-AL-3471 TCGA-AL-3472 TCGA-B3-3926 TCGA-B3-4104 TCGA-B9-4113 
       58.45        13.55        30.31         4.11         4.44        50.50 
TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4617 
       10.82         3.02         1.08 

subtype1 subtype2 
    0.46     1.08 
subtype1 subtype2 
   53.79    58.45 
subtype1 subtype2 
    5.88    10.82 
[1] "0.5 - 53.8 (5.9)"  "1.1 - 58.5 (10.8)"
 [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [7] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[13] "subtype2" "subtype2" "subtype1" "subtype2"
 [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [7] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[13] "subtype2" "subtype2" "subtype1" "subtype2"
 [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [7] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[13] "subtype2" "subtype2" "subtype1" "subtype2"
[1] "hr=" "1.8"
D1V2, continuous
D1V3, binary
          cls
clus       0 1
  subtype1 1 6
  subtype2 3 6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    6
  subtype2    3    6
        clus
vv       subtype1 subtype2
  FEMALE        1        3
  MALE          6        6
D1V4, continuous
[1] "Remove cluster labels:" "subtype1"              
clus
subtype1 
       1 
character(0)
          vv
clus       T1 T2 T3+T4
  subtype1  1  4     2
  subtype2  6  3     0
D1V5, multiclass
          vv
clus       N1
  subtype1  2
  subtype2  0
[1] "NOT AVAILABLE: table dimension [2x1]"
          vv
clus       M0 M1
  subtype1  4  1
  subtype2  5  0
D1V7, multiclass
    clus
vv   subtype1 subtype2
  M0        4        5
  M1        1        0
          vv
clus       I II III IV
  subtype1 1  1   1  1
  subtype2 4  1   0  0
D1V8, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2      0 1
  subtype1 3 1
  subtype2 6 1
  subtype3 5 0
subtype1 subtype2 subtype3 
       4        7        5 
subtype1 subtype2 subtype3 
       1        1        0 
$subtype1
TCGA-AL-3467 TCGA-AL-3472 TCGA-B9-4113 TCGA-B9-4115 
       58.45        30.31        50.50        10.82 

$subtype2
TCGA-AL-3466 TCGA-AL-3473 TCGA-B3-3925 TCGA-B3-4103 TCGA-B3-4104 TCGA-B9-4116 
        9.63        25.08         3.58         5.88         4.44         3.02 
TCGA-B9-4117 
        0.46 

$subtype3
TCGA-AL-3468 TCGA-AL-3471 TCGA-B3-3926 TCGA-B9-4114 TCGA-B9-4617 
       53.79        13.55         4.11         0.69         1.08 

subtype1 subtype2 subtype3 
   10.82     0.46     0.69 
subtype1 subtype2 subtype3 
   58.45    25.08    53.79 
subtype1 subtype2 subtype3 
  40.405    4.440    4.110 
[1] "10.8 - 58.5 (40.4)" "0.5 - 25.1 (4.4)"   "0.7 - 53.8 (4.1)"  
 [1] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[13] "subtype1" "subtype2" "subtype2" "subtype3"
 [1] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[13] "subtype1" "subtype2" "subtype2" "subtype3"
 [1] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[13] "subtype1" "subtype2" "subtype2" "subtype3"
D2V2, continuous
D2V3, binary
          cls
clus       0 1
  subtype1 1 3
  subtype2 2 5
  subtype3 1 4
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    3
  subtype2    2    5
  subtype3    1    4
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        1        2        1
  MALE          3        5        4
D2V4, continuous
[1] "Remove cluster labels:" "subtype2"              
clus
subtype2 
       1 
character(0)
          vv
clus       T1 T2 T3+T4
  subtype1  3  1     0
  subtype2  1  4     2
  subtype3  3  2     0
D2V5, multiclass
          vv
clus       N1
  subtype1  0
  subtype2  2
  subtype3  0
[1] "NOT AVAILABLE: table dimension [3x1]"
          vv
clus       M0 M1
  subtype1  2  0
  subtype2  4  1
  subtype3  3  0
D2V7, multiclass
[1] "Remove cluster labels:" "subtype1"              
clus
subtype1 subtype2 subtype3 
       2        5        3 
[1] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[8] "subtype2"
    clus
vv   subtype2 subtype3
  M0        4        3
  M1        1        0
          vv
clus       I II III IV
  subtype1 2  0   0  0
  subtype2 1  2   1  1
  subtype3 2  0   0  0
D2V8, multiclass
[1] "Remove cluster labels:" "subtype1"               "subtype3"              
clus
subtype1 subtype2 subtype3 
       2        5        2 
[1] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 18  2
  subtype2 14  1
  subtype3 19  6
  subtype4 31  5
subtype1 subtype2 subtype3 subtype4 
      20       15       25       36 
subtype1 subtype2 subtype3 subtype4 
       2        1        6        5 
$subtype1
TCGA-A4-7286 TCGA-A4-7287 TCGA-AL-3468 TCGA-AL-3471 TCGA-B1-7332 TCGA-B3-4103 
        0.03         0.69        53.79        13.55         7.33         5.88 
TCGA-B9-4117 TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-BQ-5881 TCGA-BQ-7045 
        0.46         0.62         6.44         1.18        47.80        48.26 
TCGA-BQ-7046 TCGA-BQ-7060 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-7836 TCGA-DZ-6133 
       96.92         7.00         3.78        11.61        35.93        51.16 
TCGA-G7-6790 TCGA-GL-6846 
       32.12       182.73 

$subtype2
TCGA-A4-7288 TCGA-A4-7732 TCGA-A4-7734 TCGA-AL-3472 TCGA-B3-3925 TCGA-B9-4113 
       15.95         0.03         0.89        30.31         3.58        50.50 
TCGA-B9-4617 TCGA-BQ-5891 TCGA-BQ-7051 TCGA-DW-5561 TCGA-DW-7837 TCGA-DW-7840 
        1.08         0.95        50.37        13.61        37.55         3.75 
TCGA-DW-7842 TCGA-EV-5901 TCGA-G7-6795 
        3.02        15.48        30.51 

$subtype3
TCGA-A4-7583 TCGA-A4-8098 TCGA-AL-3466 TCGA-AL-3473 TCGA-AL-7173 TCGA-B3-3926 
        0.10         4.60         9.63        25.08        44.61         4.11 
TCGA-B9-4116 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5880 TCGA-BQ-5882 TCGA-BQ-5885 
        3.02        19.23         8.84        43.17        21.63        30.28 
TCGA-BQ-5888 TCGA-BQ-5890 TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-DZ-6131 
       13.25         7.63        11.97         7.89         2.76        79.82 
TCGA-DZ-6132 TCGA-EV-5902 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-6796 TCGA-G7-7502 
       80.84         5.85         6.84        11.05        34.82        14.07 
TCGA-GL-7966 
        3.68 

$subtype4
TCGA-A4-7585 TCGA-A4-7915 TCGA-A4-7996 TCGA-AL-3467 TCGA-B1-5398 TCGA-B3-4104 
       35.18         0.23         1.61        58.45        11.05         4.44 
TCGA-B3-8121 TCGA-B9-4114 TCGA-B9-4115 TCGA-BQ-5875 TCGA-BQ-5878 TCGA-BQ-5879 
        4.83         0.69        10.82        86.73        63.72        22.92 
TCGA-BQ-5883 TCGA-BQ-5884 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5889 TCGA-BQ-7044 
       40.83        26.04        26.04        25.35        10.82       123.58 
TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7050 TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 
       93.34        44.84        61.28        49.84        26.27        20.12 
TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7061 TCGA-DW-7834 TCGA-DW-7838 TCGA-DW-7839 
       11.28         7.63         7.13       129.86        24.46        13.74 
TCGA-DW-7841 TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5903 TCGA-G7-6792 TCGA-G7-6797 
       14.63        61.02        54.87         5.26        41.33        12.72 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.03     0.10     0.23 
subtype1 subtype2 subtype3 subtype4 
  182.73    50.50    80.84   129.86 
subtype1 subtype2 subtype3 subtype4 
   9.470   13.610   11.050   24.905 
[1] "0.0 - 182.7 (9.5)"  "0.0 - 50.5 (13.6)"  "0.1 - 80.8 (11.1)" 
[4] "0.2 - 129.9 (24.9)"
 [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype4" "subtype2"
 [7] "subtype2" "subtype4" "subtype4" "subtype3" "subtype3" "subtype4"
[13] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype4"
[19] "subtype1" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
[25] "subtype2" "subtype4" "subtype4" "subtype3" "subtype1" "subtype2"
[31] "subtype1" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[37] "subtype4" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[43] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
[49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[55] "subtype1" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[61] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[67] "subtype4" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[73] "subtype2" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
[79] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
[85] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype3"
[91] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype3"
 [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype4" "subtype2"
 [7] "subtype2" "subtype4" "subtype4" "subtype3" "subtype3" "subtype4"
[13] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype4"
[19] "subtype1" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
[25] "subtype2" "subtype4" "subtype4" "subtype3" "subtype1" "subtype2"
[31] "subtype1" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[37] "subtype4" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[43] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
[49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[55] "subtype1" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[61] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[67] "subtype4" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[73] "subtype2" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
[79] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
[85] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype3"
[91] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype3"
 [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype4" "subtype2"
 [7] "subtype2" "subtype4" "subtype4" "subtype3" "subtype3" "subtype4"
[13] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype4"
[19] "subtype1" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
[25] "subtype2" "subtype4" "subtype4" "subtype3" "subtype1" "subtype2"
[31] "subtype1" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[37] "subtype4" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[43] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
[49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[55] "subtype1" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[61] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[67] "subtype4" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[73] "subtype2" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
[79] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
[85] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype3"
[91] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype3"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1  6 15
  subtype2  4 12
  subtype3  7 18
  subtype4 16 25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   15
  subtype2    4   12
  subtype3    7   18
  subtype4   16   25
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        6        4        7       16
  MALE         15       12       18       25
D3V4, continuous
          vv
clus       T1 T2 T3+T4
  subtype1 13  4     4
  subtype2 10  4     2
  subtype3 10  2    13
  subtype4 25  3    13
D3V5, multiclass
          vv
clus       N0 N1 N2
  subtype1  2  1  0
  subtype2  3  0  0
  subtype3  7  7  3
  subtype4  8  3  1
D3V6, multiclass
          vv
clus       M0 M1 MX
  subtype1 11  0  6
  subtype2  7  0  7
  subtype3 12  4  8
  subtype4 24  1 14
D3V7, multiclass
          vv
clus        I II III IV
  subtype1 12  2   2  1
  subtype2  9  1   2  0
  subtype3 10  1   6  7
  subtype4 22  3  13  1
D3V8, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 15  4
  subtype2 19  6
  subtype3 32  2
subtype1 subtype2 subtype3 
      19       25       34 
subtype1 subtype2 subtype3 
       4        6        2 
$subtype1
TCGA-A4-7286 TCGA-A4-7585 TCGA-AL-7173 TCGA-B1-5398 TCGA-BQ-5880 TCGA-BQ-5883 
        0.03        35.18        44.61        11.05        43.17        40.83 
TCGA-BQ-5884 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-7049 TCGA-BQ-7055 TCGA-BQ-7059 
       26.04        13.25        10.82        44.84        26.27         7.63 
TCGA-BQ-7062 TCGA-DW-7838 TCGA-DW-7841 TCGA-DZ-6132 TCGA-DZ-6134 TCGA-EV-5903 
        3.78        24.46        14.63        80.84        61.02         5.26 
TCGA-G7-6796 
       34.82 

$subtype2
TCGA-A4-7287 TCGA-A4-7915 TCGA-BQ-5875 TCGA-BQ-5876 TCGA-BQ-5877 TCGA-BQ-5878 
        0.69         0.23        86.73        19.23         8.84        63.72 
TCGA-BQ-5879 TCGA-BQ-5882 TCGA-BQ-5886 TCGA-BQ-5887 TCGA-BQ-5890 TCGA-BQ-5891 
       22.92        21.63        26.04        25.35         7.63         0.95 
TCGA-BQ-5892 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7044 TCGA-BQ-7048 TCGA-BQ-7056 
       11.97         7.89         2.76       123.58        93.34        20.12 
TCGA-BQ-7058 TCGA-BQ-7061 TCGA-DZ-6131 TCGA-G7-6789 TCGA-G7-6793 TCGA-GL-6846 
       11.28         7.13        79.82         6.84        11.05       182.73 
TCGA-GL-7966 
        3.68 

$subtype3
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7732 TCGA-A4-7734 TCGA-A4-7996 TCGA-B1-7332 
       15.95         0.10         0.03         0.89         1.61         7.33 
TCGA-B9-5155 TCGA-B9-5156 TCGA-B9-7268 TCGA-BQ-5881 TCGA-BQ-5885 TCGA-BQ-7045 
        0.62         6.44         1.18        47.80        30.28        48.26 
TCGA-BQ-7046 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7053 TCGA-BQ-7060 TCGA-DW-5560 
       96.92        61.28        50.37        49.84         7.00        11.61 
TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7837 TCGA-DW-7839 TCGA-DW-7840 
       13.61       129.86        35.93        37.55        13.74         3.75 
TCGA-DW-7842 TCGA-DZ-6133 TCGA-DZ-6135 TCGA-EV-5901 TCGA-EV-5902 TCGA-G7-6790 
        3.02        51.16        54.87        15.48         5.85        32.12 
TCGA-G7-6792 TCGA-G7-6795 TCGA-G7-6797 TCGA-G7-7502 
       41.33        30.51        12.72        14.07 

subtype1 subtype2 subtype3 
    0.03     0.23     0.03 
subtype1 subtype2 subtype3 
   80.84   182.73   129.86 
subtype1 subtype2 subtype3 
  26.040   11.970   14.775 
[1] "0.0 - 80.8 (26.0)"  "0.2 - 182.7 (12.0)" "0.0 - 129.9 (14.8)"
 [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [7] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[37] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[43] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[49] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[55] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[67] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [7] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[37] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[43] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[49] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[55] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[67] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [7] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[37] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[43] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[49] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[55] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[67] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1  6 15
  subtype2 12 14
  subtype3 10 28
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   15
  subtype2   12   14
  subtype3   10   28
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        6       12       10
  MALE         15       14       28
D4V4, continuous
[1] "Remove cluster labels:" "subtype2"              
clus
subtype1 subtype2 subtype3 
       6        1       13 
 [1] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [7] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[13] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[19] "subtype3"
          vv
clus       T1 T2 T3+T4
  subtype1 15  0     6
  subtype2  4  1    21
  subtype3 30  5     3
D4V5, multiclass
          vv
clus       N0 N1 N2
  subtype1  3  2  1
  subtype2  9  7  3
  subtype3  8  0  0
D4V6, multiclass
          vv
clus       M0 M1 MX
  subtype1 13  1  6
  subtype2 16  3  7
  subtype3 16  0 20
D4V7, multiclass
          vv
clus        I II III IV
  subtype1 14  1   3  2
  subtype2  4  1  15  6
  subtype3 28  3   4  0
D4V8, multiclass

Clustering(5) Variable = MRNASEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 21  3
  subtype2 14  8
  subtype3 23  2
subtype1 subtype2 subtype3 
      24       22       25 
subtype1 subtype2 subtype3 
       3        8        2 
$subtype1
TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-B3-3925 TCGA-B3-3926 TCGA-B3-4103 
       53.79        13.55        30.31         3.58         4.11         5.88 
TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-4617 TCGA-BQ-7045 
       50.50         0.69        10.82         0.46         1.08        48.26 
TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DZ-6133 TCGA-DZ-6135 TCGA-EV-5901 
        3.78        11.61        13.61        51.16        54.87        15.48 
TCGA-EV-5902 TCGA-EV-5903 TCGA-G7-6792 TCGA-G7-6795 TCGA-G7-6797 TCGA-G7-7502 
        5.85         5.26        41.33        30.51        12.72        14.07 

$subtype2
TCGA-AL-3466 TCGA-AL-3467 TCGA-B3-4104 TCGA-B9-4116 TCGA-BQ-5877 TCGA-BQ-5879 
        9.63        58.45         4.44         3.02         8.84        22.92 
TCGA-BQ-5882 TCGA-BQ-5883 TCGA-BQ-5887 TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5891 
       21.63        40.83        25.35        13.25        10.82         0.95 
TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7053 TCGA-DZ-6131 
        7.89         2.76        93.34        44.84        49.84        79.82 
TCGA-DZ-6132 TCGA-G7-6789 TCGA-G7-6793 TCGA-GL-7966 
       80.84         6.84        11.05         3.68 

$subtype3
TCGA-AL-3473 TCGA-B1-5398 TCGA-B9-5156 TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5880 
       25.08        11.05         6.44        19.23        63.72        43.17 
TCGA-BQ-5881 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5886 TCGA-BQ-5890 TCGA-BQ-5892 
       47.80        26.04        30.28        26.04         7.63        11.97 
TCGA-BQ-7044 TCGA-BQ-7046 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7056 TCGA-BQ-7058 
      123.58        96.92        61.28        50.37        20.12        11.28 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7061 TCGA-DZ-6134 TCGA-G7-6790 TCGA-G7-6796 
        7.63         7.00         7.13        61.02        32.12        34.82 
TCGA-GL-6846 
      182.73 

subtype1 subtype2 subtype3 
    0.46     0.95     6.44 
subtype1 subtype2 subtype3 
   54.87    93.34   182.73 
subtype1 subtype2 subtype3 
  13.135   12.150   26.040 
[1] "0.5 - 54.9 (13.1)"  "0.9 - 93.3 (12.2)"  "6.4 - 182.7 (26.0)"
 [1] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[13] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[31] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[37] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[55] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[67] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [1] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[13] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[31] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[37] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[55] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[67] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [1] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[13] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[31] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[37] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[55] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[67] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1  5 21
  subtype2 12 11
  subtype3  5 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5   21
  subtype2   12   11
  subtype3    5   20
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        5       12        5
  MALE         21       11       20
D5V4, continuous
[1] "Remove cluster labels:" "subtype2"               "subtype3"              
clus
subtype1 subtype2 subtype3 
       7        2        2 
[1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
          vv
clus       T1 T2 T3+T4
  subtype1 20  5     1
  subtype2  5  2    16
  subtype3 13  2    10
D5V5, multiclass
          vv
clus       N0 N1 N2
  subtype1  2  0  0
  subtype2  6  7  2
  subtype3  7  4  1
D5V6, multiclass
[1] "Remove cluster labels:" "subtype1"              
clus
subtype1 subtype2 subtype3 
       2       15       12 
 [1] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[13] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[19] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[25] "subtype2" "subtype3" "subtype2"
          vv
clus       M0 M1 MX
  subtype1 14  0  7
  subtype2 12  5  5
  subtype3 20  0  4
D5V7, multiclass
          vv
clus        I II III IV
  subtype1 19  0   2  0
  subtype2  4  1   9  7
  subtype3 12  2   9  1
D5V8, multiclass

Clustering(6) Variable = MRNASEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 11  6
  subtype2 31  3
  subtype3 16  4
subtype1 subtype2 subtype3 
      17       34       20 
subtype1 subtype2 subtype3 
       6        3        4 
$subtype1
TCGA-AL-3467 TCGA-B3-4104 TCGA-B9-4116 TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5883 
       58.45         4.44         3.02         8.84        22.92        40.83 
TCGA-BQ-5888 TCGA-BQ-5889 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7049 TCGA-DZ-6132 
       13.25        10.82         7.89         2.76        44.84        80.84 
TCGA-EV-5901 TCGA-EV-5903 TCGA-G7-6789 TCGA-G7-6793 TCGA-GL-7966 
       15.48         5.26         6.84        11.05         3.68 

$subtype2
TCGA-AL-3468 TCGA-AL-3471 TCGA-AL-3472 TCGA-B1-5398 TCGA-B3-3925 TCGA-B3-3926 
       53.79        13.55        30.31        11.05         3.58         4.11 
TCGA-B3-4103 TCGA-B9-4113 TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4117 TCGA-B9-4617 
        5.88        50.50         0.69        10.82         0.46         1.08 
TCGA-B9-5156 TCGA-BQ-5881 TCGA-BQ-5886 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7051 
        6.44        47.80        26.04        48.26        96.92        50.37 
TCGA-BQ-7059 TCGA-BQ-7060 TCGA-BQ-7062 TCGA-DW-5560 TCGA-DW-5561 TCGA-DZ-6133 
        7.63         7.00         3.78        11.61        13.61        51.16 
TCGA-DZ-6134 TCGA-DZ-6135 TCGA-EV-5902 TCGA-G7-6790 TCGA-G7-6792 TCGA-G7-6795 
       61.02        54.87         5.85        32.12        41.33        30.51 
TCGA-G7-6796 TCGA-G7-6797 TCGA-G7-7502 TCGA-GL-6846 
       34.82        12.72        14.07       182.73 

$subtype3
TCGA-AL-3466 TCGA-AL-3473 TCGA-BQ-5876 TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5882 
        9.63        25.08        19.23        63.72        43.17        21.63 
TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5887 TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 
       26.04        30.28        25.35         7.63         0.95        11.97 
TCGA-BQ-7044 TCGA-BQ-7048 TCGA-BQ-7050 TCGA-BQ-7053 TCGA-BQ-7056 TCGA-BQ-7058 
      123.58        93.34        61.28        49.84        20.12        11.28 
TCGA-BQ-7061 TCGA-DZ-6131 
        7.13        79.82 

subtype1 subtype2 subtype3 
    2.76     0.46     0.95 
subtype1 subtype2 subtype3 
   80.84   182.73   123.58 
subtype1 subtype2 subtype3 
  10.820   13.840   25.215 
[1] "2.8 - 80.8 (10.8)"  "0.5 - 182.7 (13.8)" "0.9 - 123.6 (25.2)"
 [1] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[31] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[37] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[43] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[61] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [1] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[31] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[37] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[43] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[61] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [1] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[31] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[37] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[43] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[61] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 11  7
  subtype2  4 32
  subtype3  7 13
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   11    7
  subtype2    4   32
  subtype3    7   13
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       11        4        7
  MALE          7       32       13
D6V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
       3        7        1 
 [1] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [7] "subtype1" "subtype2" "subtype2" "subtype2"
          vv
clus       T1 T2 T3+T4
  subtype1  7  2     9
  subtype2 26  6     4
  subtype3  5  1    14
D6V5, multiclass
          vv
clus       N0 N1 N2
  subtype1  1  6  2
  subtype2  4  1  0
  subtype3 10  4  1
D6V6, multiclass
          vv
clus       M0 M1 MX
  subtype1  9  4  4
  subtype2 19  0 11
  subtype3 18  1  1
D6V7, multiclass
          vv
clus        I II III IV
  subtype1  6  1   3  6
  subtype2 24  1   4  1
  subtype3  5  1  13  1
D6V8, multiclass

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 20  4
  subtype2 27  5
  subtype3 21  3
  subtype4 14  2
subtype1 subtype2 subtype3 subtype4 
      24       32       24       16 
subtype1 subtype2 subtype3 subtype4 
       4        5        3        2 
$subtype1
TCGA-A4-7286 TCGA-A4-7585 TCGA-A4-8098 TCGA-B1-5398 TCGA-B1-7332 TCGA-B9-5156 
        0.03        35.18         4.60        11.05         7.33         6.44 
TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5881 TCGA-BQ-5882 TCGA-BQ-5886 TCGA-BQ-5890 
       63.72        43.17        47.80        21.63        26.04         7.63 
TCGA-BQ-5892 TCGA-BQ-7050 TCGA-BQ-7051 TCGA-BQ-7058 TCGA-BQ-7059 TCGA-BQ-7062 
       11.97        61.28        50.37        11.28         7.63         3.78 
TCGA-DW-7837 TCGA-DW-7840 TCGA-DW-7841 TCGA-DZ-6135 TCGA-G7-6790 TCGA-G7-6792 
       37.55         3.75        14.63        54.87        32.12        41.33 

$subtype2
TCGA-A4-7287 TCGA-A4-7734 TCGA-A4-7915 TCGA-AL-3466 TCGA-AL-7173 TCGA-B3-4104 
        0.69         0.89         0.23         9.63        44.61         4.44 
TCGA-B3-8121 TCGA-BQ-5876 TCGA-BQ-5879 TCGA-BQ-5883 TCGA-BQ-5887 TCGA-BQ-5889 
        4.83        19.23        22.92        40.83        25.35        10.82 
TCGA-BQ-5894 TCGA-BQ-7048 TCGA-BQ-7049 TCGA-BQ-7053 TCGA-BQ-7056 TCGA-BQ-7060 
        2.76        93.34        44.84        49.84        20.12         7.00 
TCGA-DW-5560 TCGA-DW-5561 TCGA-DW-7834 TCGA-DW-7836 TCGA-DW-7838 TCGA-DZ-6132 
       11.61        13.61       129.86        35.93        24.46        80.84 
TCGA-DZ-6134 TCGA-EV-5901 TCGA-EV-5903 TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-6796 
       61.02        15.48         5.26         6.84        11.05        34.82 
TCGA-GL-6846 TCGA-GL-7966 
      182.73         3.68 

$subtype3
TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7732 TCGA-A4-7996 TCGA-AL-3468 TCGA-AL-3471 
       15.95         0.10         0.03         1.61        53.79        13.55 
TCGA-B3-3926 TCGA-B3-4103 TCGA-B9-4113 TCGA-B9-4115 TCGA-B9-4617 TCGA-B9-5155 
        4.11         5.88        50.50        10.82         1.08         0.62 
TCGA-B9-7268 TCGA-BQ-5888 TCGA-BQ-7044 TCGA-BQ-7045 TCGA-BQ-7046 TCGA-BQ-7055 
        1.18        13.25       123.58        48.26        96.92        26.27 
TCGA-DW-7842 TCGA-DZ-6133 TCGA-EV-5902 TCGA-G7-6795 TCGA-G7-6797 TCGA-G7-7502 
        3.02        51.16         5.85        30.51        12.72        14.07 

$subtype4
TCGA-AL-3467 TCGA-AL-3472 TCGA-AL-3473 TCGA-B3-3925 TCGA-B9-4114 TCGA-B9-4116 
       58.45        30.31        25.08         3.58         0.69         3.02 
TCGA-B9-4117 TCGA-BQ-5875 TCGA-BQ-5877 TCGA-BQ-5884 TCGA-BQ-5885 TCGA-BQ-5891 
        0.46        86.73         8.84        26.04        30.28         0.95 
TCGA-BQ-5893 TCGA-BQ-7061 TCGA-DW-7839 TCGA-DZ-6131 
        7.89         7.13        13.74        79.82 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.23     0.03     0.46 
subtype1 subtype2 subtype3 subtype4 
   63.72   182.73   123.58    86.73 
subtype1 subtype2 subtype3 subtype4 
  18.130   17.355   12.985   11.290 
[1] "0.0 - 63.7 (18.1)"  "0.2 - 182.7 (17.4)" "0.0 - 123.6 (13.0)"
[4] "0.5 - 86.7 (11.3)" 
 [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [7] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[13] "subtype3" "subtype3" "subtype4" "subtype4" "subtype2" "subtype1"
[19] "subtype1" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[25] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[31] "subtype3" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
[37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[43] "subtype4" "subtype4" "subtype1" "subtype2" "subtype3" "subtype2"
[49] "subtype1" "subtype4" "subtype1" "subtype4" "subtype2" "subtype3"
[55] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[61] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[67] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[73] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype3"
[79] "subtype4" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [7] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[13] "subtype3" "subtype3" "subtype4" "subtype4" "subtype2" "subtype1"
[19] "subtype1" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[25] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[31] "subtype3" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
[37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[43] "subtype4" "subtype4" "subtype1" "subtype2" "subtype3" "subtype2"
[49] "subtype1" "subtype4" "subtype1" "subtype4" "subtype2" "subtype3"
[55] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[61] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[67] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[73] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype3"
[79] "subtype4" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [7] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[13] "subtype3" "subtype3" "subtype4" "subtype4" "subtype2" "subtype1"
[19] "subtype1" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[25] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[31] "subtype3" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
[37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[43] "subtype4" "subtype4" "subtype1" "subtype2" "subtype3" "subtype2"
[49] "subtype1" "subtype4" "subtype1" "subtype4" "subtype2" "subtype3"
[55] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[61] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[67] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[73] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype3"
[79] "subtype4" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1  3 21
  subtype2 16 18
  subtype3  6 23
  subtype4  8  8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   21
  subtype2   16   18
  subtype3    6   23
  subtype4    8    8
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        3       16        6        8
  MALE         21       18       23        8
D7V4, continuous
[1] "Remove cluster labels:" "subtype4"              
clus
subtype1 subtype2 subtype3 subtype4 
       5       11        4        1 
 [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[13] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[19] "subtype3" "subtype3"
          vv
clus       T1 T2 T3+T4
  subtype1 13  2     9
  subtype2 19  2    13
  subtype3 22  4     3
  subtype4  4  5     7
D7V5, multiclass
          vv
clus       N0 N1 N2
  subtype1  7  2  1
  subtype2  5  6  3
  subtype3  5  0  0
  subtype4  3  3  0
D7V6, multiclass
          vv
clus       M0 M1 MX
  subtype1 14  0  8
  subtype2 17  3 14
  subtype3 14  0 11
  subtype4  9  2  2
D7V7, multiclass
          vv
clus        I II III IV
  subtype1 12  2   8  0
  subtype2 18  3   6  7
  subtype3 20  1   4  0
  subtype4  3  1   5  2
D7V8, multiclass

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 19  5
  subtype2 29  7
  subtype3 10  0
  subtype4 24  2
subtype1 subtype2 subtype3 subtype4 
      24       36       10       26 
subtype1 subtype2 subtype3 subtype4 
       5        7        0        2 
$subtype1
TCGA-A4-7585 TCGA-A4-8098 TCGA-AL-3466 TCGA-AL-3473 TCGA-B1-5398 TCGA-B3-3925 
       35.18         4.60         9.63        25.08        11.05         3.58 
TCGA-BQ-5875 TCGA-BQ-5878 TCGA-BQ-5880 TCGA-BQ-5882 TCGA-BQ-5885 TCGA-BQ-5886 
       86.73        63.72        43.17        21.63        30.28        26.04 
TCGA-BQ-5890 TCGA-BQ-5891 TCGA-BQ-5892 TCGA-BQ-7051 TCGA-BQ-7058 TCGA-BQ-7059 
        7.63         0.95        11.97        50.37        11.28         7.63 
TCGA-BQ-7061 TCGA-DW-7837 TCGA-DW-7840 TCGA-DW-7841 TCGA-DZ-6135 TCGA-G7-6792 
        7.13        37.55         3.75        14.63        54.87        41.33 

$subtype2
TCGA-A4-7287 TCGA-A4-7734 TCGA-A4-7915 TCGA-AL-3472 TCGA-AL-7173 TCGA-B3-4104 
        0.69         0.89         0.23        30.31        44.61         4.44 
TCGA-B3-8121 TCGA-BQ-5877 TCGA-BQ-5879 TCGA-BQ-5883 TCGA-BQ-5887 TCGA-BQ-5888 
        4.83         8.84        22.92        40.83        25.35        13.25 
TCGA-BQ-5889 TCGA-BQ-5893 TCGA-BQ-5894 TCGA-BQ-7045 TCGA-BQ-7048 TCGA-BQ-7049 
       10.82         7.89         2.76        48.26        93.34        44.84 
TCGA-BQ-7053 TCGA-BQ-7055 TCGA-BQ-7056 TCGA-DW-5560 TCGA-DW-7834 TCGA-DW-7836 
       49.84        26.27        20.12        11.61       129.86        35.93 
TCGA-DW-7838 TCGA-DW-7842 TCGA-DZ-6132 TCGA-DZ-6134 TCGA-EV-5901 TCGA-EV-5903 
       24.46         3.02        80.84        61.02        15.48         5.26 
TCGA-G7-6789 TCGA-G7-6793 TCGA-G7-6796 TCGA-G7-7502 TCGA-GL-6846 TCGA-GL-7966 
        6.84        11.05        34.82        14.07       182.73         3.68 

$subtype3
TCGA-B9-5156 TCGA-BQ-5876 TCGA-BQ-5881 TCGA-BQ-5884 TCGA-BQ-7046 TCGA-BQ-7060 
        6.44        19.23        47.80        26.04        96.92         7.00 
TCGA-BQ-7062 TCGA-DW-5561 TCGA-DZ-6131 TCGA-G7-6790 
        3.78        13.61        79.82        32.12 

$subtype4
TCGA-A4-7286 TCGA-A4-7288 TCGA-A4-7583 TCGA-A4-7732 TCGA-A4-7996 TCGA-AL-3467 
        0.03        15.95         0.10         0.03         1.61        58.45 
TCGA-AL-3468 TCGA-AL-3471 TCGA-B1-7332 TCGA-B3-3926 TCGA-B3-4103 TCGA-B9-4113 
       53.79        13.55         7.33         4.11         5.88        50.50 
TCGA-B9-4114 TCGA-B9-4115 TCGA-B9-4116 TCGA-B9-4117 TCGA-B9-4617 TCGA-B9-5155 
        0.69        10.82         3.02         0.46         1.08         0.62 
TCGA-B9-7268 TCGA-BQ-7044 TCGA-BQ-7050 TCGA-DW-7839 TCGA-DZ-6133 TCGA-EV-5902 
        1.18       123.58        61.28        13.74        51.16         5.85 
TCGA-G7-6795 TCGA-G7-6797 
       30.51        12.72 

subtype1 subtype2 subtype3 subtype4 
    0.95     0.23     3.78     0.03 
subtype1 subtype2 subtype3 subtype4 
   86.73   182.73    96.92   123.58 
subtype1 subtype2 subtype3 subtype4 
  18.130   17.800   22.635    6.605 
[1] "0.9 - 86.7 (18.1)"  "0.2 - 182.7 (17.8)" "3.8 - 96.9 (22.6)" 
[4] "0.0 - 123.6 (6.6)" 
 [1] "subtype4" "subtype2" "subtype4" "subtype4" "subtype1" "subtype4"
 [7] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype4"
[13] "subtype4" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[19] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
[25] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[31] "subtype4" "subtype3" "subtype4" "subtype1" "subtype3" "subtype2"
[37] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[43] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[49] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype4"
[55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
[61] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[67] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[73] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[79] "subtype3" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[85] "subtype4" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[91] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
 [1] "subtype4" "subtype2" "subtype4" "subtype4" "subtype1" "subtype4"
 [7] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype4"
[13] "subtype4" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[19] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
[25] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[31] "subtype4" "subtype3" "subtype4" "subtype1" "subtype3" "subtype2"
[37] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[43] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[49] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype4"
[55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
[61] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[67] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[73] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[79] "subtype3" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[85] "subtype4" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[91] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
 [1] "subtype4" "subtype2" "subtype4" "subtype4" "subtype1" "subtype4"
 [7] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype4"
[13] "subtype4" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[19] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
[25] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[31] "subtype4" "subtype3" "subtype4" "subtype1" "subtype3" "subtype2"
[37] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[43] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[49] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype4"
[55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
[61] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[67] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[73] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[79] "subtype3" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[85] "subtype4" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[91] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1  4 20
  subtype2 18 22
  subtype3  1 10
  subtype4 10 18
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   20
  subtype2   18   22
  subtype3    1   10
  subtype4   10   18
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        4       18        1       10
  MALE         20       22       10       18
D8V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 subtype4 
       4       11        2        4 
 [1] "subtype4" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [7] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[19] "subtype2"
          vv
clus       T1 T2 T3+T4
  subtype1  9  2    13
  subtype2 22  3    15
  subtype3 10  0     1
  subtype4 17  8     3
D8V5, multiclass
          vv
clus       N0 N1 N2
  subtype1  8  4  1
  subtype2  7  7  3
  subtype3  1  0  0
  subtype4  4  0  0
D8V6, multiclass
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 subtype4 
      13       17        1        4 
 [1] "subtype4" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [7] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[13] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[19] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[25] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[31] "subtype4" "subtype2" "subtype2" "subtype2"
          vv
clus       M0 M1 MX
  subtype1 17  1  6
  subtype2 19  4 17
  subtype3  7  0  3
  subtype4 11  0  9
D8V7, multiclass
          vv
clus        I II III IV
  subtype1  9  2  12  1
  subtype2 21  3   7  8
  subtype3  9  0   1  0
  subtype4 14  2   3  0
D8V8, multiclass
                         V1.D                            V2 
              "Time to Death"                         "AGE" 
                           V3                            V4 
                     "GENDER" "KARNOFSKY.PERFORMANCE.SCORE" 
                           V5                            V6 
                "PATHOLOGY.T"                 "PATHOLOGY.N" 
                           V7                            V8 
        "PATHOLOGICSPREAD(M)"                 "TUMOR.STAGE" 
> q(save="no")
