
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/LUSC-TP/2909314/1.GDAC_mergedClustering.Finished/LUSC-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/LUSC-TP/2843850/1.GDAC_clinicalDataPicker.Finished/LUSC-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=327, in cluster file=399, common to both=327
[1]  10 327
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
43 50 30 31 
 1  2  3  4 
43 50 30 31 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3 
28 54 72 
 1  2  3 
28 54 72 
[1] "CN_CNMF"
[1] 3
  1   2   3 
113 108 104 
  1   2   3 
113 108 104 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
71 69 53 
 1  2  3 
71 69 53 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
59 73 62 
 1  2  3 
59 73 62 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
57 48 49 40 
 1  2  3  4 
57 48 49 40 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4 
60 81 79 38 
 1  2  3  4 
60 81 79 38 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
116  87  55 
  1   2   3 
116  87  55 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
141 126  33 
  1   2   3 
141 126  33 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 47 160  93 
  1   2   3 
 47 160  93 
[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] "TOBACCOSMOKINGHISTORYINDICATOR"        
[19] "YEAROFTOBACCOSMOKINGONSET"             
[20] "COMPLETENESS.OF.RESECTION"             
[21] "BATCHNUMBER"                           

Input Data has 21 rows and 327 columns.

[1] "Batch" "21"   
[1] "Last Follow UP"
TCGA-18-3406 TCGA-18-3407 TCGA-18-3408 TCGA-18-3409 TCGA-18-3410 TCGA-18-3411 
         370          136         2466         2417          146         1415 
TCGA-18-3412 TCGA-18-3414 TCGA-18-3415 TCGA-18-3416 TCGA-18-3417 TCGA-18-3419 
         345          396         1810          862          758           49 
TCGA-18-3421 TCGA-18-4083 TCGA-18-4086 TCGA-18-4721 TCGA-18-5592 TCGA-18-5595 
        1331          187           85         2753           92          826 
TCGA-21-1070 TCGA-21-1071 TCGA-21-1072 TCGA-21-1075 TCGA-21-1076 TCGA-21-1077 
        3516         1426         3016         2133         1852         1058 
TCGA-21-1078 TCGA-21-1079 TCGA-21-1080 TCGA-21-1081 TCGA-21-1082 TCGA-21-1083 
         473          964         3724          283         3644          267 
TCGA-21-5782 TCGA-21-5783 TCGA-21-5784 TCGA-21-5786 TCGA-21-5787 TCGA-22-0940 
         962           NA          908          656          329          608 
TCGA-22-0944 TCGA-22-1000 TCGA-22-1002 TCGA-22-1005 TCGA-22-1011 TCGA-22-1012 
         223          454          131         1953           53          429 
TCGA-22-1016 TCGA-22-1017 TCGA-22-4591 TCGA-22-4593 TCGA-22-4594 TCGA-22-4595 
         822         1485          622         1067         1470          734 
TCGA-22-4596 TCGA-22-4599 TCGA-22-4601 TCGA-22-4604 TCGA-22-4605 TCGA-22-4607 
          17         1161         1057          399           NA          587 
TCGA-22-4609 TCGA-22-4613 TCGA-22-5471 TCGA-22-5472 TCGA-22-5473 TCGA-22-5474 
          NA          358          964         1974         1932          444 
TCGA-22-5477 TCGA-22-5478 TCGA-22-5479 TCGA-22-5480 TCGA-22-5481 TCGA-22-5482 
        1345           24         1651         2170           NA          357 
TCGA-22-5483 TCGA-22-5485 TCGA-22-5489 TCGA-22-5491 TCGA-22-5492 TCGA-33-4532 
         573          915         1912         1713          505         2524 
TCGA-33-4533 TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 TCGA-33-4582 TCGA-33-4583 
        3469         2979         1311         5286         3149         4299 
TCGA-33-4586 TCGA-33-4587 TCGA-33-4589 TCGA-33-6737 TCGA-33-6738 TCGA-34-2596 
         428           NA          334           NA          821           80 
TCGA-34-2600 TCGA-34-2604 TCGA-34-2605 TCGA-34-2608 TCGA-34-2609 TCGA-34-5231 
        1874          958          881          999          950         1528 
TCGA-34-5232 TCGA-34-5234 TCGA-34-5236 TCGA-34-5239 TCGA-34-5240 TCGA-34-5241 
        1575          994           NA          329          235          428 
TCGA-34-5927 TCGA-34-5928 TCGA-34-5929 TCGA-34-7107 TCGA-37-3783 TCGA-37-3789 
         698          168           NA           NA          120           13 
TCGA-37-3792 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 TCGA-37-4133 TCGA-37-4135 
          12          199          246          227          238          207 
TCGA-37-4141 TCGA-37-5819 TCGA-39-5011 TCGA-39-5016 TCGA-39-5019 TCGA-39-5021 
          12          103         1454         2253         1360         2086 
TCGA-39-5022 TCGA-39-5024 TCGA-39-5027 TCGA-39-5028 TCGA-39-5029 TCGA-39-5030 
          NA         2130         1848           52          740           59 
TCGA-39-5031 TCGA-39-5034 TCGA-39-5035 TCGA-39-5036 TCGA-39-5037 TCGA-39-5039 
         832         1107          474         1084           24          544 
TCGA-43-2576 TCGA-43-2578 TCGA-43-2581 TCGA-43-3394 TCGA-43-3920 TCGA-43-5668 
         556          550          399          352          573          258 
TCGA-43-5670 TCGA-43-6143 TCGA-43-6647 TCGA-43-6770 TCGA-43-6771 TCGA-43-6773 
         549          213          183           85           NA           NA 
TCGA-43-7656 TCGA-43-7657 TCGA-43-7658 TCGA-43-8115 TCGA-43-8116 TCGA-46-3765 
         212           48         2023          202          193           NA 
TCGA-46-3766 TCGA-46-3767 TCGA-46-3768 TCGA-46-3769 TCGA-46-6025 TCGA-46-6026 
          NA           NA           NA           NA           29           18 
TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-51-6867 TCGA-52-7622 TCGA-52-7809 
          12           12           63           NA          541          178 
TCGA-52-7810 TCGA-52-7811 TCGA-52-7812 TCGA-56-1622 TCGA-56-5897 TCGA-56-5898 
         922           NA           NA          880            3           NA 
TCGA-56-6545 TCGA-56-6546 TCGA-56-7221 TCGA-56-7222 TCGA-56-7223 TCGA-56-7579 
          62           31           30           13           30           44 
TCGA-56-7580 TCGA-56-7582 TCGA-56-7730 TCGA-56-7822 TCGA-60-2695 TCGA-60-2696 
          40           26            6            1          473          109 
TCGA-60-2697 TCGA-60-2698 TCGA-60-2703 TCGA-60-2704 TCGA-60-2706 TCGA-60-2707 
          NA          311           NA           NA         2500          660 
TCGA-60-2708 TCGA-60-2709 TCGA-60-2710 TCGA-60-2711 TCGA-60-2712 TCGA-60-2713 
        2082         1505         1685          888          274         1456 
TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 
         512         1075         1181          931           96          793 
TCGA-60-2722 TCGA-60-2723 TCGA-60-2724 TCGA-60-2725 TCGA-60-2726 TCGA-63-5128 
         733          693           37          719          358           NA 
TCGA-63-5131 TCGA-63-6202 TCGA-63-7020 TCGA-63-7021 TCGA-63-7022 TCGA-63-7023 
          NA           NA           NA           NA           NA           NA 
TCGA-66-2727 TCGA-66-2734 TCGA-66-2737 TCGA-66-2742 TCGA-66-2744 TCGA-66-2753 
         516         1311           61          641           30           31 
TCGA-66-2754 TCGA-66-2755 TCGA-66-2756 TCGA-66-2757 TCGA-66-2758 TCGA-66-2759 
          61           28           30           30          638          761 
TCGA-66-2763 TCGA-66-2765 TCGA-66-2766 TCGA-66-2767 TCGA-66-2768 TCGA-66-2769 
          30           61           31           61           61          215 
TCGA-66-2770 TCGA-66-2771 TCGA-66-2773 TCGA-66-2777 TCGA-66-2778 TCGA-66-2780 
         700          578           92           61          578          366 
TCGA-66-2781 TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 TCGA-66-2786 TCGA-66-2787 
         121          365          759           59          790         1217 
TCGA-66-2788 TCGA-66-2789 TCGA-66-2790 TCGA-66-2791 TCGA-66-2792 TCGA-66-2793 
         699          123          699          153          913          306 
TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-68-7756 TCGA-68-7757 
        1645          122         1492           83          202          211 
TCGA-68-8250 TCGA-68-8251 TCGA-70-6722 TCGA-70-6723 TCGA-77-6842 TCGA-77-6843 
         244           95           NA           NA           NA           NA 
TCGA-77-6844 TCGA-77-6845 TCGA-77-7138 TCGA-77-7139 TCGA-77-7140 TCGA-77-7141 
          NA           NA           NA         2736           NA           15 
TCGA-77-7142 TCGA-77-7335 TCGA-77-7337 TCGA-77-7338 TCGA-77-7463 TCGA-77-7465 
        1285           NA           NA           NA           NA          479 
TCGA-77-8007 TCGA-77-8008 TCGA-77-8009 TCGA-77-8128 TCGA-77-8130 TCGA-77-8131 
          NA           NA         1641           NA         2522           NA 
TCGA-77-8133 TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 TCGA-77-8140 TCGA-77-8143 
          NA           NA           NA         3166           NA           NA 
TCGA-77-8144 TCGA-77-8145 TCGA-77-8146 TCGA-77-8148 TCGA-77-8150 TCGA-77-8154 
         833           NA         2183          293           NA         1092 
TCGA-77-8156 TCGA-79-5596 TCGA-85-6175 TCGA-85-6560 TCGA-85-6561 TCGA-85-6798 
          10           NA           NA           11           24           34 
TCGA-85-7696 TCGA-85-7697 TCGA-85-7698 TCGA-85-7699 TCGA-85-7710 TCGA-85-7843 
          18           10           49            1           NA           35 
TCGA-85-7844 TCGA-85-7950 TCGA-85-8048 TCGA-85-8049 TCGA-85-8052 TCGA-85-8070 
          38           60           26           60           16           43 
TCGA-85-8071 TCGA-85-8072 TCGA-85-8276 TCGA-85-8277 TCGA-85-8287 TCGA-85-8288 
          14           36           13           11           44           54 
TCGA-90-6837 TCGA-90-7766 TCGA-90-7767 TCGA-90-7769 TCGA-90-7964 TCGA-92-7340 
          41           47           89           18          100           82 
TCGA-92-7341 TCGA-92-8063 TCGA-92-8064 TCGA-92-8065 TCGA-94-7033 TCGA-94-7557 
         106          122          160           69           87           NA 
TCGA-94-7943 TCGA-96-7544 TCGA-96-7545 TCGA-96-8169 TCGA-96-8170 TCGA-98-7454 
         143         1213         1777          188          210          115 
TCGA-98-8021 TCGA-98-8022 TCGA-98-8023 
         413          223          308 
Variable 1:'AGE':	nDistinctValues=44,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=119,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=226,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=6,	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=19,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=155,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'HISTOLOGICAL.TYPE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'PATHOLOGY.T':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'PATHOLOGY.N':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'PATHOLOGICSPREAD(M)':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'TUMOR.STAGE':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBERPACKYEARSSMOKED':	nDistinctValues=88,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'TOBACCOSMOKINGHISTORYINDICATOR':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=49,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'BATCH.NUMBER':	nDistinctValues=16,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "GENDER"                                
 [3] "KARNOFSKY.PERFORMANCE.SCORE"           
 [4] "HISTOLOGICAL.TYPE"                     
 [5] "PATHOLOGY.T"                           
 [6] "PATHOLOGY.N"                           
 [7] "PATHOLOGICSPREAD(M)"                   
 [8] "TUMOR.STAGE"                           
 [9] "RADIATIONS.RADIATION.REGIMENINDICATION"
[10] "NUMBERPACKYEARSSMOKED"                 
[11] "TOBACCOSMOKINGHISTORYINDICATOR"        
[12] "YEAROFTOBACCOSMOKINGONSET"             
[13] "COMPLETENESS.OF.RESECTION"             
[1] "TUMOR.?STAGE" "8"           
[1] "stage2"
vv
  1   2   3   4 
167  90  62   4 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "5"          
[1] "PATHOLOGY.N" "6"          
Output Data has 327 columns, 1 survival variables, and 13 non-survival variables.
AGE, nv=44, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=8, binary=FALSE, numeric=TRUE
HISTOLOGICAL.TYPE, nv=5, binary=FALSE, numeric=FALSE
PATHOLOGY.T, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
 80 196  33  18 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
 80 196  33  18 
$ClinVariableName
[1] "PATHOLOGY.T"

$Table
vv
 T1  T2  T3  T4 
 80 196  33  18 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
 80 196  33  18 
PATHOLOGY.N, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
203  91  26   5 
[1] "table(vv)"
vv
 N0  N1  N2  N3 
203  91  26   5 
$ClinVariableName
[1] "PATHOLOGY.N"

$Table
vv
 N0  N1  N2  N3 
203  91  26   5 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 N0  N1  N2  N3 
203  91  26   5 
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 
167  90  62   4 
[1] "table(vv)"
vv
  I  II III  IV 
167  90  62   4 
$ClinVariableName
[1] "TUMOR.STAGE"

$Table
vv
  I  II III  IV 
167  90  62   4 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


  I  II III  IV 
167  90  62   4 
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=88, binary=FALSE, numeric=TRUE
TOBACCOSMOKINGHISTORYINDICATOR, nv=4, binary=FALSE, numeric=FALSE
YEAROFTOBACCOSMOKINGONSET, nv=49, binary=FALSE, numeric=TRUE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 26 16
  subtype2 29 19
  subtype3 12 16
  subtype4 19 11
subtype1 subtype2 subtype3 subtype4 
      42       48       28       30 
subtype1 subtype2 subtype3 subtype4 
      16       19       16       11 
$subtype1
TCGA-18-3406 TCGA-18-3414 TCGA-18-3419 TCGA-18-3421 TCGA-21-1070 TCGA-21-1079 
       12.16        13.02         1.61        43.76       115.59        31.69 
TCGA-21-1080 TCGA-21-1081 TCGA-21-1082 TCGA-22-0944 TCGA-22-1011 TCGA-22-4595 
      122.43         9.30       119.80         7.33         1.74        24.13 
TCGA-22-4607 TCGA-33-4547 TCGA-33-4589 TCGA-34-2600 TCGA-34-2609 TCGA-34-5241 
       19.30        43.10        10.98        61.61        31.23        14.07 
TCGA-37-3783 TCGA-37-3789 TCGA-39-5029 TCGA-43-3920 TCGA-56-1622 TCGA-60-2707 
        3.95         0.43        24.33        18.84        28.93        21.70 
TCGA-60-2708 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 TCGA-60-2724 TCGA-66-2734 
       68.45        30.61         3.16        26.07         1.22        43.10 
TCGA-66-2742 TCGA-66-2759 TCGA-66-2763 TCGA-66-2765 TCGA-66-2768 TCGA-66-2771 
       21.07        25.02         0.99         2.01         2.01        19.00 
TCGA-66-2778 TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 TCGA-66-2788 TCGA-66-2789 
       19.00        12.03         3.98        12.00        22.98         4.04 

$subtype2
TCGA-18-3407 TCGA-18-3408 TCGA-18-3411 TCGA-18-3412 TCGA-18-3415 TCGA-18-3416 
        4.47        81.07        46.52        11.34        59.51        28.34 
TCGA-18-4086 TCGA-21-1071 TCGA-21-1072 TCGA-21-1075 TCGA-21-1076 TCGA-21-1077 
        2.79        46.88        99.16        70.13        60.89        34.78 
TCGA-22-1012 TCGA-22-4599 TCGA-22-4601 TCGA-22-4604 TCGA-33-4532 TCGA-33-4538 
       14.10        38.17        34.75        13.12        82.98        97.94 
TCGA-34-2596 TCGA-34-2605 TCGA-34-5240 TCGA-39-5016 TCGA-39-5021 TCGA-39-5036 
        2.63        28.96         7.73        74.07        68.58        35.64 
TCGA-39-5037 TCGA-43-3394 TCGA-46-3768 TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 
        0.79        11.57         9.96         0.39         0.39         2.07 
TCGA-60-2710 TCGA-60-2711 TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 TCGA-66-2737 
       55.40        29.19        24.10        22.78        16.96         2.01 
TCGA-66-2758 TCGA-66-2766 TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 TCGA-66-2783 
       20.98         1.02        23.01         3.02         2.01        24.95 
TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 
       40.01         5.03        30.02        54.08         4.01        49.05 

$subtype3
TCGA-18-3409 TCGA-22-0940 TCGA-22-1000 TCGA-22-1002 TCGA-22-1005 TCGA-22-1016 
       79.46        19.99        14.93         4.31        64.21        27.02 
TCGA-22-1017 TCGA-22-4594 TCGA-22-4596 TCGA-34-2604 TCGA-34-2608 TCGA-37-3792 
       48.82        48.33         0.56        31.50        32.84         0.39 
TCGA-39-5030 TCGA-43-2576 TCGA-43-2581 TCGA-60-2696 TCGA-60-2698 TCGA-60-2706 
        1.94        18.28        13.12         3.58        10.22        82.19 
TCGA-60-2712 TCGA-60-2714 TCGA-60-2715 TCGA-60-2725 TCGA-66-2744 TCGA-66-2753 
        9.01        16.83        35.34        23.64         0.99         1.02 
TCGA-66-2767 TCGA-66-2769 TCGA-66-2785 TCGA-66-2786 
        2.01         7.07         1.94        25.97 

$subtype4
TCGA-18-3410 TCGA-18-3417 TCGA-18-4083 TCGA-21-1078 TCGA-21-1083 TCGA-22-4591 
        4.80        24.92         6.15        15.55         8.78        20.45 
TCGA-22-4613 TCGA-33-4533 TCGA-33-4566 TCGA-33-4582 TCGA-37-4129 TCGA-37-4130 
       11.77       114.05       173.79       103.53         6.54         8.09 
TCGA-37-4132 TCGA-37-4133 TCGA-37-4135 TCGA-37-4141 TCGA-39-5011 TCGA-39-5034 
        7.46         7.82         6.81         0.39        47.80        36.39 
TCGA-39-5035 TCGA-43-2578 TCGA-60-2695 TCGA-60-2713 TCGA-60-2716 TCGA-60-2726 
       15.58        18.08        15.55        47.87        38.83        11.77 
TCGA-66-2754 TCGA-66-2755 TCGA-66-2756 TCGA-66-2757 TCGA-66-2790 TCGA-66-2793 
        2.01         0.92         0.99         0.99        22.98        10.06 

subtype1 subtype2 subtype3 subtype4 
    0.43     0.39     0.39     0.39 
subtype1 subtype2 subtype3 subtype4 
  122.43    99.16    82.19   173.79 
subtype1 subtype2 subtype3 subtype4 
  19.000   24.525   15.880   11.770 
[1] "0.4 - 122.4 (19.0)" "0.4 - 99.2 (24.5)"  "0.4 - 82.2 (15.9)" 
[4] "0.4 - 173.8 (11.8)"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype4" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype4" "subtype1"
 [13] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype4" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [37] "subtype4" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype4" "subtype2" "subtype4" "subtype2"
 [49] "subtype1" "subtype4" "subtype4" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
 [67] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
 [73] "subtype1" "subtype3" "subtype4" "subtype4" "subtype2" "subtype2"
 [79] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype4" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype2"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[127] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype4" "subtype2" "subtype2"
[145] "subtype4" "subtype2" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype4" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype4" "subtype1"
 [13] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype4" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [37] "subtype4" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype4" "subtype2" "subtype4" "subtype2"
 [49] "subtype1" "subtype4" "subtype4" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
 [67] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
 [73] "subtype1" "subtype3" "subtype4" "subtype4" "subtype2" "subtype2"
 [79] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype4" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype2"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[127] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype4" "subtype2" "subtype2"
[145] "subtype4" "subtype2" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype4" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype4" "subtype1"
 [13] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype4" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [37] "subtype4" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype4" "subtype2" "subtype4" "subtype2"
 [49] "subtype1" "subtype4" "subtype4" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
 [67] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
 [73] "subtype1" "subtype3" "subtype4" "subtype4" "subtype2" "subtype2"
 [79] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype4" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype2"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[127] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype4" "subtype2" "subtype2"
[145] "subtype4" "subtype2" "subtype2" "subtype2"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1  9 34
  subtype2 13 37
  subtype3 11 19
  subtype4 11 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    9   34
  subtype2   13   37
  subtype3   11   19
  subtype4   11   20
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        9       13       11       11
  MALE         34       37       19       20
D1V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     0
  subtype2                                     3
  subtype3                                     1
  subtype4                                     1
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      0
  subtype2                                      0
  subtype3                                      0
  subtype4                                      1
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          43
  subtype2                                                          47
  subtype3                                                          29
  subtype4                                                          29
D1V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1  5 31  6  1
  subtype2  4 39  1  6
  subtype3 11 16  2  1
  subtype4 10 14  3  4
D1V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 26 11  4  2
  subtype2 27 17  4  2
  subtype3 20  6  3  1
  subtype4 23  6  2  0
D1V7, multiclass
          vv
clus       M0 M1
  subtype1 39  2
  subtype2 48  0
  subtype3 30  0
  subtype4 29  2
D1V8, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0       39       48       30       29
  M1        2        0        0        2
          vv
clus        I II III IV
  subtype1 23  9   9  2
  subtype2 25 13  12  0
  subtype3 17  6   6  0
  subtype4 16  6   7  2
D1V9, multiclass
D1V10, binary
          cls
clus        0  1
  subtype1  1 42
  subtype2  0 50
  subtype3  1 29
  subtype4  0 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   42
  subtype2    0   50
  subtype3    1   29
  subtype4    0   31
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        1        0
  YES       42       50       29       31
D1V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          25
  subtype2                                          27
  subtype3                                          16
  subtype4                                          13
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     10              4
  subtype2                                     10             13
  subtype3                                     10              3
  subtype4                                      9              6
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   2
  subtype2                   0
  subtype3                   1
  subtype4                   3
D1V12, multiclass
D1V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 39  0  1  1
  subtype2 45  1  1  1
  subtype3 25  1  0  3
  subtype4 30  1  0  0
D1V14, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 20  7
  subtype2 31 21
  subtype3 35 34
subtype1 subtype2 subtype3 
      27       52       69 
subtype1 subtype2 subtype3 
       7       21       34 
$subtype1
TCGA-21-1083 TCGA-22-1005 TCGA-22-1017 TCGA-22-4594 TCGA-22-4596 TCGA-33-4533 
        8.78        64.21        48.82        48.33         0.56       114.05 
TCGA-33-4566 TCGA-37-3792 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 TCGA-37-4135 
      173.79         0.39         6.54         8.09         7.46         6.81 
TCGA-37-4141 TCGA-39-5011 TCGA-39-5034 TCGA-39-5035 TCGA-43-2576 TCGA-43-2578 
        0.39        47.80        36.39        15.58        18.28        18.08 
TCGA-43-2581 TCGA-60-2695 TCGA-60-2706 TCGA-60-2714 TCGA-66-2754 TCGA-66-2756 
       13.12        15.55        82.19        16.83         2.01         0.99 
TCGA-66-2757 TCGA-66-2785 TCGA-66-2790 
        0.99         1.94        22.98 

$subtype2
TCGA-18-3407 TCGA-18-3408 TCGA-18-3411 TCGA-18-3412 TCGA-18-3415 TCGA-18-3416 
        4.47        81.07        46.52        11.34        59.51        28.34 
TCGA-18-4083 TCGA-18-4086 TCGA-21-1071 TCGA-21-1072 TCGA-21-1075 TCGA-21-1077 
        6.15         2.79        46.88        99.16        70.13        34.78 
TCGA-22-0944 TCGA-22-1012 TCGA-22-4599 TCGA-22-4601 TCGA-22-4604 TCGA-33-4532 
        7.33        14.10        38.17        34.75        13.12        82.98 
TCGA-33-4538 TCGA-34-2596 TCGA-34-2605 TCGA-34-5240 TCGA-37-4133 TCGA-39-5016 
       97.94         2.63        28.96         7.73         7.82        74.07 
TCGA-39-5021 TCGA-39-5036 TCGA-39-5037 TCGA-43-3394 TCGA-46-3768 TCGA-51-4079 
       68.58        35.64         0.79        11.57         9.96         0.39 
TCGA-51-4080 TCGA-51-4081 TCGA-60-2710 TCGA-60-2711 TCGA-60-2713 TCGA-60-2722 
        0.39         2.07        55.40        29.19        47.87        24.10 
TCGA-60-2723 TCGA-66-2727 TCGA-66-2737 TCGA-66-2758 TCGA-66-2759 TCGA-66-2766 
       22.78        16.96         2.01        20.98        25.02         1.02 
TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 TCGA-66-2783 TCGA-66-2787 TCGA-66-2791 
       23.01         3.02         2.01        24.95        40.01         5.03 
TCGA-66-2792 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 
       30.02        54.08         4.01        49.05 

$subtype3
TCGA-18-3406 TCGA-18-3409 TCGA-18-3410 TCGA-18-3414 TCGA-18-3417 TCGA-18-3419 
       12.16        79.46         4.80        13.02        24.92         1.61 
TCGA-18-3421 TCGA-21-1070 TCGA-21-1076 TCGA-21-1078 TCGA-21-1079 TCGA-21-1080 
       43.76       115.59        60.89        15.55        31.69       122.43 
TCGA-21-1081 TCGA-21-1082 TCGA-22-0940 TCGA-22-1000 TCGA-22-1002 TCGA-22-1011 
        9.30       119.80        19.99        14.93         4.31         1.74 
TCGA-22-1016 TCGA-22-4591 TCGA-22-4595 TCGA-22-4607 TCGA-22-4613 TCGA-33-4547 
       27.02        20.45        24.13        19.30        11.77        43.10 
TCGA-33-4582 TCGA-33-4589 TCGA-34-2600 TCGA-34-2604 TCGA-34-2608 TCGA-34-2609 
      103.53        10.98        61.61        31.50        32.84        31.23 
TCGA-34-5241 TCGA-37-3783 TCGA-37-3789 TCGA-39-5029 TCGA-39-5030 TCGA-43-3920 
       14.07         3.95         0.43        24.33         1.94        18.84 
TCGA-56-1622 TCGA-60-2696 TCGA-60-2698 TCGA-60-2707 TCGA-60-2708 TCGA-60-2712 
       28.93         3.58        10.22        21.70        68.45         9.01 
TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 TCGA-60-2724 
       35.34        38.83        30.61         3.16        26.07         1.22 
TCGA-60-2725 TCGA-60-2726 TCGA-66-2734 TCGA-66-2742 TCGA-66-2744 TCGA-66-2753 
       23.64        11.77        43.10        21.07         0.99         1.02 
TCGA-66-2755 TCGA-66-2763 TCGA-66-2765 TCGA-66-2767 TCGA-66-2768 TCGA-66-2769 
        0.92         0.99         2.01         2.01         2.01         7.07 
TCGA-66-2771 TCGA-66-2778 TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 TCGA-66-2786 
       19.00        19.00        12.03         3.98        12.00        25.97 
TCGA-66-2788 TCGA-66-2789 TCGA-66-2793 
       22.98         4.04        10.06 

subtype1 subtype2 subtype3 
    0.39     0.39     0.43 
subtype1 subtype2 subtype3 
  173.79    99.16   122.43 
subtype1 subtype2 subtype3 
  15.550   23.555   18.840 
[1] "0.4 - 173.8 (15.6)" "0.4 - 99.2 (23.6)"  "0.4 - 122.4 (18.8)"
  [1] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2"
  [1] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2"
  [1] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 15 13
  subtype2 12 42
  subtype3 17 55
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15   13
  subtype2   12   42
  subtype3   17   55
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       15       12       17
  MALE         13       42       55
D2V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     1
  subtype2                                     3
  subtype3                                     1
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      0
  subtype2                                      0
  subtype3                                      1
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          27
  subtype2                                                          51
  subtype3                                                          70
D2V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 12 11  3  2
  subtype2  4 42  1  7
  subtype3 14 47  8  3
D2V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 22  3  3  0
  subtype2 29 18  5  2
  subtype3 45 19  5  3
D2V7, multiclass
          vv
clus       M0 M1
  subtype1 27  1
  subtype2 52  0
  subtype3 67  3
D2V8, multiclass
    clus
vv   subtype1 subtype2 subtype3
  M0       27       52       67
  M1        1        0        3
          vv
clus        I II III IV
  subtype1 17  4   6  1
  subtype2 26 14  14  0
  subtype3 38 16  14  3
D2V9, multiclass
D2V10, binary
          cls
clus        0  1
  subtype1  1 27
  subtype2  0 54
  subtype3  1 71
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   27
  subtype2    0   54
  subtype3    1   71
     clus
vv    subtype1 subtype2 subtype3
  NO         1        0        1
  YES       27       54       71
D2V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          17
  subtype2                                          26
  subtype3                                          38
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                      4              4
  subtype2                                     12             16
  subtype3                                     23              6
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   3
  subtype2                   0
  subtype3                   3
D2V12, multiclass
D2V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 26  1  0  0
  subtype2 49  1  1  1
  subtype3 64  1  1  4
D2V14, multiclass

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 57 50
  subtype2 67 37
  subtype3 64 33
subtype1 subtype2 subtype3 
     107      104       97 
subtype1 subtype2 subtype3 
      50       37       33 
$subtype1
TCGA-18-3406 TCGA-18-3407 TCGA-18-4721 TCGA-18-5595 TCGA-21-1070 TCGA-21-1076 
       12.16         4.47        90.51        27.16       115.59        60.89 
TCGA-21-1078 TCGA-21-5784 TCGA-22-0940 TCGA-22-1000 TCGA-22-1002 TCGA-22-1005 
       15.55        29.85        19.99        14.93         4.31        64.21 
TCGA-22-1011 TCGA-22-1016 TCGA-22-1017 TCGA-22-4594 TCGA-22-4596 TCGA-22-4605 
        1.74        27.02        48.82        48.33         0.56        32.02 
TCGA-22-4609 TCGA-22-5472 TCGA-22-5479 TCGA-22-5480 TCGA-22-5481 TCGA-22-5489 
        9.53        64.90        54.28        71.34        79.20        62.86 
TCGA-33-4566 TCGA-33-4583 TCGA-33-4587 TCGA-33-4589 TCGA-33-6737 TCGA-34-2604 
      173.79       141.34        54.44        10.98        19.76        31.50 
TCGA-34-2608 TCGA-34-5232 TCGA-34-5234 TCGA-34-5236 TCGA-34-5239 TCGA-34-5241 
       32.84        51.78        32.68         9.04        10.82        14.07 
TCGA-37-3783 TCGA-37-3792 TCGA-37-4129 TCGA-37-4132 TCGA-39-5011 TCGA-39-5021 
        3.95         0.39         6.54         7.46        47.80        68.58 
TCGA-39-5022 TCGA-39-5024 TCGA-39-5028 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 
       55.17        70.03         1.71         1.94        36.39        15.58 
TCGA-39-5039 TCGA-43-2576 TCGA-43-2581 TCGA-43-5668 TCGA-43-6647 TCGA-43-6771 
       17.88        18.28        13.12         8.48         6.02         5.42 
TCGA-43-6773 TCGA-43-8115 TCGA-52-7811 TCGA-52-7812 TCGA-56-5897 TCGA-56-6546 
        3.78         6.64         8.75        27.45         0.10         1.02 
TCGA-56-7221 TCGA-60-2696 TCGA-60-2697 TCGA-60-2704 TCGA-60-2707 TCGA-60-2709 
        0.99         3.58        12.23        37.94        21.70        49.48 
TCGA-60-2712 TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2720 TCGA-60-2725 
        9.01        16.83        35.34        38.83         3.16        23.64 
TCGA-66-2734 TCGA-66-2737 TCGA-66-2744 TCGA-66-2765 TCGA-66-2771 TCGA-66-2773 
       43.10         2.01         0.99         2.01        19.00         3.02 
TCGA-66-2778 TCGA-66-2782 TCGA-66-2783 TCGA-66-2788 TCGA-68-7756 TCGA-68-7757 
       19.00        12.00        24.95        22.98         6.64         6.94 
TCGA-68-8251 TCGA-77-7138 TCGA-77-7335 TCGA-77-8007 TCGA-77-8008 TCGA-77-8131 
        3.12        11.18        70.09         6.51        86.76        12.59 
TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 TCGA-77-8144 TCGA-85-6561 TCGA-85-7697 
       39.09        17.69       104.09        27.39         0.79         0.33 
TCGA-85-7950 TCGA-85-8048 TCGA-85-8049 TCGA-90-6837 TCGA-92-7340 TCGA-92-8063 
        1.97         0.85         1.97         1.35         2.70         4.01 
TCGA-92-8065 TCGA-96-8170 TCGA-98-7454 TCGA-98-8022 TCGA-98-8023 
        2.27         6.90         3.78         7.33        10.13 

$subtype2
TCGA-18-3408 TCGA-18-3411 TCGA-18-3412 TCGA-18-3415 TCGA-18-3416 TCGA-18-3417 
       81.07        46.52        11.34        59.51        28.34        24.92 
TCGA-18-4083 TCGA-18-4086 TCGA-18-5592 TCGA-21-1071 TCGA-21-1072 TCGA-21-1075 
        6.15         2.79         3.02        46.88        99.16        70.13 
TCGA-21-1077 TCGA-21-1079 TCGA-21-1081 TCGA-21-1083 TCGA-21-5786 TCGA-22-0944 
       34.78        31.69         9.30         8.78        21.57         7.33 
TCGA-22-4593 TCGA-22-4595 TCGA-22-4599 TCGA-22-4604 TCGA-22-4613 TCGA-22-5471 
       35.08        24.13        38.17        13.12        11.77        31.69 
TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 TCGA-22-5485 TCGA-33-4532 TCGA-33-4533 
       63.52        14.60        44.22        30.08        82.98       114.05 
TCGA-33-4538 TCGA-33-4586 TCGA-34-2596 TCGA-34-2600 TCGA-34-2605 TCGA-34-5231 
       97.94        14.07         2.63        61.61        28.96        50.24 
TCGA-34-5240 TCGA-34-5927 TCGA-34-7107 TCGA-37-4133 TCGA-37-5819 TCGA-39-5016 
        7.73        22.95         1.08         7.82         3.39        74.07 
TCGA-39-5019 TCGA-39-5027 TCGA-39-5031 TCGA-39-5036 TCGA-39-5037 TCGA-43-3394 
       44.71        60.76        27.35        35.64         0.79        11.57 
TCGA-43-6143 TCGA-43-7657 TCGA-43-7658 TCGA-46-3768 TCGA-46-6025 TCGA-51-4079 
        7.00         1.58        66.51         9.96         0.95         0.39 
TCGA-51-4080 TCGA-51-4081 TCGA-52-7622 TCGA-56-7223 TCGA-56-7582 TCGA-56-7730 
        0.39         2.07        17.79         0.99         0.85         0.20 
TCGA-60-2698 TCGA-60-2708 TCGA-60-2713 TCGA-60-2722 TCGA-66-2742 TCGA-66-2755 
       10.22        68.45        47.87        24.10        21.07         0.92 
TCGA-66-2758 TCGA-66-2766 TCGA-66-2767 TCGA-66-2770 TCGA-66-2777 TCGA-66-2787 
       20.98         1.02         2.01        23.01         2.01        40.01 
TCGA-66-2791 TCGA-66-2792 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 
        5.03        30.02        54.08         4.01        49.05         2.73 
TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 TCGA-77-7140 TCGA-77-7141 TCGA-77-7142 
       73.08        23.28        89.95        20.78         0.49        42.25 
TCGA-77-7338 TCGA-77-8009 TCGA-77-8128 TCGA-77-8133 TCGA-77-8145 TCGA-77-8148 
        0.16        53.95        37.81        53.92         6.97         9.63 
TCGA-77-8150 TCGA-77-8156 TCGA-85-6798 TCGA-85-7696 TCGA-85-7698 TCGA-85-8052 
       54.41         0.33         1.12         0.59         1.61         0.53 
TCGA-85-8070 TCGA-85-8072 TCGA-85-8277 TCGA-90-7769 TCGA-92-7341 TCGA-92-8064 
        1.41         1.18         0.36         0.59         3.48         5.26 
TCGA-94-7943 TCGA-96-7545 
        4.70        58.42 

$subtype3
TCGA-18-3409 TCGA-18-3410 TCGA-18-3414 TCGA-18-3419 TCGA-18-3421 TCGA-21-1080 
       79.46         4.80        13.02         1.61        43.76       122.43 
TCGA-21-1082 TCGA-21-5782 TCGA-21-5783 TCGA-21-5787 TCGA-22-1012 TCGA-22-4591 
      119.80        31.63        88.08        10.82        14.10        20.45 
TCGA-22-4601 TCGA-22-4607 TCGA-22-5478 TCGA-22-5482 TCGA-22-5483 TCGA-22-5491 
       34.75        19.30         0.79        11.74        18.84        56.32 
TCGA-22-5492 TCGA-33-4547 TCGA-33-4582 TCGA-33-6738 TCGA-34-2609 TCGA-34-5928 
       16.60        43.10       103.53        26.99        31.23         5.52 
TCGA-34-5929 TCGA-37-3789 TCGA-37-4130 TCGA-37-4135 TCGA-37-4141 TCGA-39-5029 
        4.96         0.43         8.09         6.81         0.39        24.33 
TCGA-43-2578 TCGA-43-3920 TCGA-43-5670 TCGA-43-6770 TCGA-43-7656 TCGA-43-8116 
       18.08        18.84        18.05         2.79         6.97         6.35 
TCGA-46-6026 TCGA-52-7809 TCGA-52-7810 TCGA-56-1622 TCGA-56-6545 TCGA-56-7222 
        0.59         5.85        30.31        28.93         2.04         0.43 
TCGA-56-7579 TCGA-56-7580 TCGA-56-7822 TCGA-60-2695 TCGA-60-2703 TCGA-60-2706 
        1.45         1.32         0.03        15.55        96.82        82.19 
TCGA-60-2710 TCGA-60-2711 TCGA-60-2719 TCGA-60-2721 TCGA-60-2723 TCGA-60-2724 
       55.40        29.19        30.61        26.07        22.78         1.22 
TCGA-60-2726 TCGA-66-2727 TCGA-66-2753 TCGA-66-2754 TCGA-66-2756 TCGA-66-2757 
       11.77        16.96         1.02         2.01         0.99         0.99 
TCGA-66-2759 TCGA-66-2763 TCGA-66-2768 TCGA-66-2769 TCGA-66-2780 TCGA-66-2781 
       25.02         0.99         2.01         7.07        12.03         3.98 
TCGA-66-2785 TCGA-66-2786 TCGA-66-2789 TCGA-66-2790 TCGA-66-2793 TCGA-68-8250 
        1.94        25.97         4.04        22.98        10.06         8.02 
TCGA-77-6842 TCGA-77-6844 TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 TCGA-77-8130 
       29.56        75.09       106.95        46.78        15.75        82.92 
TCGA-77-8140 TCGA-77-8143 TCGA-77-8154 TCGA-85-6560 TCGA-85-7699 TCGA-85-7843 
       11.54        26.40        35.90         0.36         0.03         1.15 
TCGA-85-7844 TCGA-85-8071 TCGA-85-8276 TCGA-85-8287 TCGA-85-8288 TCGA-90-7766 
        1.25         0.46         0.43         1.45         1.78         1.55 
TCGA-90-7767 TCGA-90-7964 TCGA-94-7033 TCGA-94-7557 TCGA-96-7544 TCGA-96-8169 
        2.93         3.29         2.86         0.16        39.88         6.18 
TCGA-98-8021 
       13.58 

subtype1 subtype2 subtype3 
    0.10     0.16     0.03 
subtype1 subtype2 subtype3 
  173.79   114.05   122.43 
subtype1 subtype2 subtype3 
  14.070   16.195   11.740 
[1] "0.1 - 173.8 (14.1)" "0.2 - 114.0 (16.2)" "0.0 - 122.4 (11.7)"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
 [37] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [67] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[115] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[157] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[175] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[193] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[199] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[223] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[235] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[247] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[259] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[271] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[289] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[295] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[301] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[307] "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
 [37] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [67] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[115] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[157] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[175] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[193] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[199] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[223] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[235] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[247] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[259] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[271] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[289] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[295] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[301] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[307] "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
 [37] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [67] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[115] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[157] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[175] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[193] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[199] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[223] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[235] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[247] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[259] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[271] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[289] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[295] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[301] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[307] "subtype1" "subtype1"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 39 74
  subtype2 18 90
  subtype3 26 78
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   39   74
  subtype2   18   90
  subtype3   26   78
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       39       18       26
  MALE         74       90       78
D3V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     0
  subtype2                                     4
  subtype3                                     3
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       1
  subtype2                                       0
  subtype3                                       0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                         111
  subtype2                                                         103
  subtype3                                                         101
D3V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 27 68 14  4
  subtype2 22 66 13  7
  subtype3 29 62  6  7
D3V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 76 24 10  2
  subtype2 60 37  8  2
  subtype3 65 30  8  1
D3V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 97  1 14
  subtype2 96  2  7
  subtype3 92  1  9
D3V8, multiclass
          vv
clus        I II III IV
  subtype1 61 32  17  1
  subtype2 51 31  24  2
  subtype3 53 27  21  1
D3V9, multiclass
D3V10, binary
          cls
clus         0   1
  subtype1   4 109
  subtype2   4 104
  subtype3   3 101
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  109
  subtype2    4  104
  subtype3    3  101
     clus
vv    subtype1 subtype2 subtype3
  NO         4        4        3
  YES      109      104      101
D3V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          53
  subtype2                                          47
  subtype3                                          58
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     30             18
  subtype2                                     24             32
  subtype3                                     20             22
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   7
  subtype2                   4
  subtype3                   3
D3V12, multiclass
D3V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 84  1  2 10
  subtype2 88  3  1  5
  subtype3 81  2  1  1
D3V14, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 37 29
  subtype2 41 24
  subtype3 33 16
subtype1 subtype2 subtype3 
      66       65       49 
subtype1 subtype2 subtype3 
      29       24       16 
$subtype1
TCGA-18-3417 TCGA-21-5784 TCGA-21-5787 TCGA-22-4605 TCGA-22-4609 TCGA-22-5481 
       24.92        29.85        10.82        32.02         9.53        79.20 
TCGA-22-5489 TCGA-33-4566 TCGA-33-4589 TCGA-33-6737 TCGA-33-6738 TCGA-34-5232 
       62.86       173.79        10.98        19.76        26.99        51.78 
TCGA-34-5234 TCGA-34-5236 TCGA-34-5241 TCGA-34-5928 TCGA-39-5011 TCGA-39-5022 
       32.68         9.04        14.07         5.52        47.80        55.17 
TCGA-39-5024 TCGA-39-5028 TCGA-39-5030 TCGA-39-5034 TCGA-39-5039 TCGA-43-5668 
       70.03         1.71         1.94        36.39        17.88         8.48 
TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-7656 TCGA-43-7658 TCGA-52-7811 
        6.02         5.42         3.78         6.97        66.51         8.75 
TCGA-52-7812 TCGA-56-5897 TCGA-56-6545 TCGA-56-6546 TCGA-56-7580 TCGA-60-2697 
       27.45         0.10         2.04         1.02         1.32        12.23 
TCGA-60-2703 TCGA-60-2704 TCGA-60-2709 TCGA-68-7756 TCGA-68-7757 TCGA-68-8251 
       96.82        37.94        49.48         6.64         6.94         3.12 
TCGA-77-6842 TCGA-77-7138 TCGA-77-8007 TCGA-77-8008 TCGA-77-8131 TCGA-77-8136 
       29.56        11.18         6.51        86.76        12.59        39.09 
TCGA-77-8138 TCGA-77-8146 TCGA-77-8156 TCGA-85-6560 TCGA-85-7697 TCGA-85-8048 
       17.69        71.77         0.33         0.36         0.33         0.85 
TCGA-85-8049 TCGA-85-8287 TCGA-90-6837 TCGA-92-8063 TCGA-92-8065 TCGA-94-7033 
        1.97         1.45         1.35         4.01         2.27         2.86 
TCGA-94-7557 TCGA-96-8169 TCGA-96-8170 TCGA-98-7454 TCGA-98-8022 TCGA-98-8023 
        0.16         6.18         6.90         3.78         7.33        10.13 

$subtype2
TCGA-18-4721 TCGA-18-5592 TCGA-21-5783 TCGA-21-5786 TCGA-22-4599 TCGA-22-4601 
       90.51         3.02        88.08        21.57        38.17        34.75 
TCGA-22-4613 TCGA-22-5471 TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 TCGA-22-5479 
       11.77        31.69        63.52        14.60        44.22        54.28 
TCGA-22-5482 TCGA-22-5483 TCGA-22-5485 TCGA-22-5491 TCGA-33-4582 TCGA-33-4583 
       11.74        18.84        30.08        56.32       103.53       141.34 
TCGA-33-4586 TCGA-34-5240 TCGA-34-7107 TCGA-39-5016 TCGA-39-5019 TCGA-39-5021 
       14.07         7.73         1.08        74.07        44.71        68.58 
TCGA-39-5027 TCGA-39-5031 TCGA-39-5036 TCGA-39-5037 TCGA-43-6770 TCGA-43-7657 
       60.76        27.35        35.64         0.79         2.79         1.58 
TCGA-43-8115 TCGA-46-6025 TCGA-51-6867 TCGA-52-7622 TCGA-56-7223 TCGA-56-7579 
        6.64         0.95        60.99        17.79         0.99         1.45 
TCGA-56-7582 TCGA-56-7730 TCGA-68-7755 TCGA-77-6843 TCGA-77-6845 TCGA-77-7140 
        0.85         0.20         2.73        73.08        23.28        20.78 
TCGA-77-7141 TCGA-77-7142 TCGA-77-7335 TCGA-77-7338 TCGA-77-8009 TCGA-77-8128 
        0.49        42.25        70.09         0.16        53.95        37.81 
TCGA-77-8133 TCGA-77-8144 TCGA-77-8150 TCGA-85-6561 TCGA-85-6798 TCGA-85-7696 
       53.92        27.39        54.41         0.79         1.12         0.59 
TCGA-85-7698 TCGA-85-7844 TCGA-85-8052 TCGA-85-8070 TCGA-85-8072 TCGA-85-8276 
        1.61         1.25         0.53         1.41         1.18         0.43 
TCGA-85-8277 TCGA-90-7769 TCGA-92-7341 TCGA-92-8064 TCGA-96-7545 
        0.36         0.59         3.48         5.26        58.42 

$subtype3
TCGA-18-5595 TCGA-21-5782 TCGA-22-4593 TCGA-22-5472 TCGA-22-5478 TCGA-22-5480 
       27.16        31.63        35.08        64.90         0.79        71.34 
TCGA-22-5492 TCGA-33-4587 TCGA-34-5231 TCGA-34-5239 TCGA-34-5927 TCGA-34-5929 
       16.60        54.44        50.24        10.82        22.95         4.96 
TCGA-37-5819 TCGA-39-5029 TCGA-39-5035 TCGA-43-5670 TCGA-43-6143 TCGA-43-8116 
        3.39        24.33        15.58        18.05         7.00         6.35 
TCGA-46-6026 TCGA-52-7809 TCGA-52-7810 TCGA-56-7221 TCGA-56-7222 TCGA-56-7822 
        0.59         5.85        30.31         0.99         0.43         0.03 
TCGA-68-8250 TCGA-77-6844 TCGA-77-7139 TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 
        8.02        75.09        89.95       106.95        46.78        15.75 
TCGA-77-8130 TCGA-77-8139 TCGA-77-8140 TCGA-77-8143 TCGA-77-8145 TCGA-77-8148 
       82.92       104.09        11.54        26.40         6.97         9.63 
TCGA-77-8154 TCGA-85-7699 TCGA-85-7843 TCGA-85-7950 TCGA-85-8071 TCGA-85-8288 
       35.90         0.03         1.15         1.97         0.46         1.78 
TCGA-90-7766 TCGA-90-7767 TCGA-90-7964 TCGA-92-7340 TCGA-94-7943 TCGA-96-7544 
        1.55         2.93         3.29         2.70         4.70        39.88 
TCGA-98-8021 
       13.58 

subtype1 subtype2 subtype3 
    0.10     0.16     0.03 
subtype1 subtype2 subtype3 
  173.79   141.34   106.95 
subtype1 subtype2 subtype3 
   9.285   17.790   11.540 
[1] "0.1 - 173.8 (9.3)"  "0.2 - 141.3 (17.8)" "0.0 - 107.0 (11.5)"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
 [13] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [25] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [37] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [79] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[127] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[151] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[163] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
 [13] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [25] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [37] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [79] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[127] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[151] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[163] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
 [13] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [25] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [37] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [79] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[127] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[151] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[163] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 21 50
  subtype2 15 54
  subtype3 13 40
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   21   50
  subtype2   15   54
  subtype3   13   40
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       21       15       13
  MALE         50       54       40
D4V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     0
  subtype2                                     2
  subtype3                                     2
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      0
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       0
  subtype2                                       0
  subtype3                                       1
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          71
  subtype2                                                          66
  subtype3                                                          50
D4V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 19 42  8  2
  subtype2 22 35 10  2
  subtype3 15 31  4  3
D4V6, multiclass
          vv
clus       N0 N1 N2
  subtype1 43 19  8
  subtype2 46 20  3
  subtype3 30 18  4
D4V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 56  1 14
  subtype2 61  0  8
  subtype3 43  0  8
D4V8, multiclass
          vv
clus        I II III IV
  subtype1 35 23  11  1
  subtype2 38 21  10  0
  subtype3 23 18  10  0
D4V9, multiclass
D4V10, binary
          cls
clus        0  1
  subtype1  4 67
  subtype2  1 68
  subtype3  4 49
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   67
  subtype2    1   68
  subtype3    4   49
     clus
vv    subtype1 subtype2 subtype3
  NO         4        1        4
  YES       67       68       49
D4V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          30
  subtype2                                          28
  subtype3                                          27
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     19             16
  subtype2                                     13             25
  subtype3                                      9             13
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   3
  subtype2                   3
  subtype3                   2
D4V12, multiclass
D4V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 44  0  0  6
  subtype2 56  1  1  3
  subtype3 33  2  1  2
D4V14, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 41 15
  subtype2 39 30
  subtype3 29 27
subtype1 subtype2 subtype3 
      56       69       56 
subtype1 subtype2 subtype3 
      15       30       27 
$subtype1
TCGA-18-4721 TCGA-21-1072 TCGA-21-1076 TCGA-21-1080 TCGA-21-1083 TCGA-22-5483 
       90.51        99.16        60.89       122.43         8.78        18.84 
TCGA-22-5489 TCGA-33-4532 TCGA-33-4566 TCGA-33-4582 TCGA-33-4586 TCGA-33-6738 
       62.86        82.98       173.79       103.53        14.07        26.99 
TCGA-34-2605 TCGA-34-5231 TCGA-34-5239 TCGA-34-5927 TCGA-34-5929 TCGA-37-4133 
       28.96        50.24        10.82        22.95         4.96         7.82 
TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5016 TCGA-39-5022 TCGA-39-5034 
        6.81         0.39         3.39        74.07        55.17        36.39 
TCGA-43-2578 TCGA-43-6143 TCGA-43-6771 TCGA-43-7656 TCGA-43-7658 TCGA-46-6026 
       18.08         7.00         5.42         6.97        66.51         0.59 
TCGA-52-7810 TCGA-52-7812 TCGA-60-2708 TCGA-60-2709 TCGA-60-2711 TCGA-60-2714 
       30.31        27.45        68.45        49.48        29.19        16.83 
TCGA-60-2716 TCGA-66-2727 TCGA-66-2758 TCGA-66-2766 TCGA-66-2767 TCGA-66-2783 
       38.83        16.96        20.98         1.02         2.01        24.95 
TCGA-66-2785 TCGA-66-2790 TCGA-66-2794 TCGA-66-2795 TCGA-77-6842 TCGA-77-6843 
        1.94        22.98        54.08         4.01        29.56        73.08 
TCGA-77-7139 TCGA-77-7141 TCGA-77-7465 TCGA-85-7698 TCGA-85-7699 TCGA-85-7950 
       89.95         0.49        15.75         1.61         0.03         1.97 
TCGA-90-7767 TCGA-96-7544 
        2.93        39.88 

$subtype2
TCGA-18-5592 TCGA-18-5595 TCGA-21-1070 TCGA-21-1071 TCGA-21-1075 TCGA-21-1081 
        3.02        27.16       115.59        46.88        70.13         9.30 
TCGA-21-5784 TCGA-21-5786 TCGA-21-5787 TCGA-22-0940 TCGA-22-4607 TCGA-22-5471 
       29.85        21.57        10.82        19.99        19.30        31.69 
TCGA-22-5472 TCGA-22-5473 TCGA-22-5477 TCGA-22-5479 TCGA-22-5480 TCGA-22-5492 
       64.90        63.52        44.22        54.28        71.34        16.60 
TCGA-33-4547 TCGA-33-4589 TCGA-34-2609 TCGA-34-5232 TCGA-34-5234 TCGA-34-5236 
       43.10        10.98        31.23        51.78        32.68         9.04 
TCGA-34-5241 TCGA-34-5928 TCGA-37-3789 TCGA-37-3792 TCGA-39-5011 TCGA-39-5019 
       14.07         5.52         0.43         0.39        47.80        44.71 
TCGA-39-5021 TCGA-39-5024 TCGA-39-5027 TCGA-39-5028 TCGA-39-5029 TCGA-39-5035 
       68.58        70.03        60.76         1.71        24.33        15.58 
TCGA-39-5037 TCGA-43-5670 TCGA-43-6770 TCGA-46-6025 TCGA-52-7811 TCGA-56-6545 
        0.79        18.05         2.79         0.95         8.75         2.04 
TCGA-56-6546 TCGA-56-7222 TCGA-60-2696 TCGA-60-2697 TCGA-60-2698 TCGA-60-2703 
        1.02         0.43         3.58        12.23        10.22        96.82 
TCGA-60-2720 TCGA-60-2721 TCGA-60-2724 TCGA-60-2726 TCGA-66-2768 TCGA-66-2769 
        3.16        26.07         1.22        11.77         2.01         7.07 
TCGA-66-2778 TCGA-66-2781 TCGA-66-2782 TCGA-66-2788 TCGA-66-2791 TCGA-77-6845 
       19.00         3.98        12.00        22.98         5.03        23.28 
TCGA-77-7337 TCGA-77-7338 TCGA-77-7463 TCGA-85-6561 TCGA-85-6798 TCGA-85-7843 
      106.95         0.16        46.78         0.79         1.12         1.15 
TCGA-85-7844 TCGA-92-7340 TCGA-94-7033 
        1.25         2.70         2.86 

$subtype3
TCGA-21-1078 TCGA-21-1079 TCGA-21-1082 TCGA-21-5782 TCGA-22-1000 TCGA-22-1011 
       15.55        31.69       119.80        31.63        14.93         1.74 
TCGA-22-4591 TCGA-22-4596 TCGA-22-4605 TCGA-22-4609 TCGA-22-5474 TCGA-22-5478 
       20.45         0.56        32.02         9.53        14.60         0.79 
TCGA-22-5482 TCGA-22-5485 TCGA-22-5491 TCGA-33-6737 TCGA-34-2596 TCGA-34-2604 
       11.74        30.08        56.32        19.76         2.63        31.50 
TCGA-34-2608 TCGA-34-7107 TCGA-37-4129 TCGA-39-5030 TCGA-39-5031 TCGA-43-2581 
       32.84         1.08         6.54         1.94        27.35        13.12 
TCGA-43-3394 TCGA-43-5668 TCGA-51-6867 TCGA-56-5897 TCGA-56-7221 TCGA-56-7730 
       11.57         8.48        60.99         0.10         0.99         0.20 
TCGA-60-2695 TCGA-60-2704 TCGA-60-2706 TCGA-60-2710 TCGA-60-2712 TCGA-60-2713 
       15.55        37.94        82.19        55.40         9.01        47.87 
TCGA-60-2719 TCGA-60-2725 TCGA-66-2737 TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 
       30.61        23.64         2.01        23.01         3.02         2.01 
TCGA-66-2800 TCGA-68-7756 TCGA-77-6844 TCGA-77-7142 TCGA-77-7335 TCGA-85-6560 
       49.05         6.64        75.09        42.25        70.09         0.36 
TCGA-85-7696 TCGA-85-7697 TCGA-90-6837 TCGA-90-7766 TCGA-90-7769 TCGA-94-7557 
        0.59         0.33         1.35         1.55         0.59         0.16 
TCGA-94-7943 TCGA-98-7454 
        4.70         3.78 

subtype1 subtype2 subtype3 
    0.03     0.16     0.10 
subtype1 subtype2 subtype3 
  173.79   115.59   119.80 
subtype1 subtype2 subtype3 
  22.965   14.070   12.430 
[1] "0.0 - 173.8 (23.0)" "0.2 - 115.6 (14.1)" "0.1 - 119.8 (12.4)"
  [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [25] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [73] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[115] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[151] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[169] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[181] "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [25] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [73] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[115] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[151] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[169] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[181] "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [25] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [73] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[115] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[151] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[169] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[181] "subtype3"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 12 47
  subtype2 17 56
  subtype3 20 42
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   12   47
  subtype2   17   56
  subtype3   20   42
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       12       17       20
  MALE         47       56       42
D5V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     0
  subtype3                                     1
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          55
  subtype2                                                          73
  subtype3                                                          61
D5V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 15 34  4  6
  subtype2 11 51  9  2
  subtype3 18 34  7  3
D5V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 34 17  6  2
  subtype2 44 22  5  2
  subtype3 46 11  4  0
D5V7, multiclass
          vv
clus       M0 MX
  subtype1 53  6
  subtype2 67  4
  subtype3 55  6
D5V8, multiclass
    clus
vv   subtype1 subtype2 subtype3
  M0       53       67       55
  MX        6        4        6
          vv
clus        I II III
  subtype1 27 18  14
  subtype2 33 26  12
  subtype3 38 13  10
D5V9, multiclass
D5V10, binary
          cls
clus        0  1
  subtype1  3 56
  subtype2  2 71
  subtype3  3 59
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   56
  subtype2    2   71
  subtype3    3   59
     clus
vv    subtype1 subtype2 subtype3
  NO         3        2        3
  YES       56       71       59
D5V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          32
  subtype2                                          37
  subtype3                                          22
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     11              9
  subtype2                                     15             14
  subtype3                                     22             16
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   5
  subtype2                   4
  subtype3                   1
D5V12, multiclass
D5V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 41  0  2  5
  subtype2 54  4  2  4
  subtype3 48  0  0  0
D5V14, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 34 19
  subtype2 29 15
  subtype3 28 18
  subtype4 18 20
subtype1 subtype2 subtype3 subtype4 
      53       44       46       38 
subtype1 subtype2 subtype3 subtype4 
      19       15       18       20 
$subtype1
TCGA-18-4721 TCGA-18-5592 TCGA-21-1076 TCGA-21-1080 TCGA-21-1082 TCGA-21-1083 
       90.51         3.02        60.89       122.43       119.80         8.78 
TCGA-21-5787 TCGA-22-1000 TCGA-22-5480 TCGA-22-5483 TCGA-22-5489 TCGA-33-4566 
       10.82        14.93        71.34        18.84        62.86       173.79 
TCGA-33-4582 TCGA-33-4589 TCGA-34-2608 TCGA-34-5231 TCGA-34-5239 TCGA-37-3792 
      103.53        10.98        32.84        50.24        10.82         0.39 
TCGA-37-4133 TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5016 TCGA-39-5024 
        7.82         6.81         0.39         3.39        74.07        70.03 
TCGA-39-5029 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-43-2581 TCGA-43-6143 
       24.33         1.94        36.39        15.58        13.12         7.00 
TCGA-43-6771 TCGA-43-7656 TCGA-43-7658 TCGA-52-7812 TCGA-60-2695 TCGA-60-2709 
        5.42         6.97        66.51        27.45        15.55        49.48 
TCGA-60-2711 TCGA-60-2712 TCGA-60-2714 TCGA-60-2716 TCGA-66-2785 TCGA-66-2794 
       29.19         9.01        16.83        38.83         1.94        54.08 
TCGA-66-2795 TCGA-77-6842 TCGA-77-6843 TCGA-77-7139 TCGA-77-7141 TCGA-77-7335 
        4.01        29.56        73.08        89.95         0.49        70.09 
TCGA-77-7465 TCGA-85-7699 TCGA-85-7950 TCGA-90-7767 TCGA-96-7544 
       15.75         0.03         1.97         2.93        39.88 

$subtype2
TCGA-21-1072 TCGA-21-1075 TCGA-21-1078 TCGA-21-1079 TCGA-22-4591 TCGA-22-4605 
       99.16        70.13        15.55        31.69        20.45        32.02 
TCGA-22-4609 TCGA-22-5491 TCGA-33-4532 TCGA-33-4586 TCGA-33-6738 TCGA-34-2605 
        9.53        56.32        82.98        14.07        26.99        28.96 
TCGA-34-5929 TCGA-37-4129 TCGA-39-5022 TCGA-39-5031 TCGA-43-2578 TCGA-43-3394 
        4.96         6.54        55.17        27.35        18.08        11.57 
TCGA-43-5668 TCGA-46-6026 TCGA-51-6867 TCGA-52-7810 TCGA-56-7730 TCGA-60-2704 
        8.48         0.59        60.99        30.31         0.20        37.94 
TCGA-60-2708 TCGA-60-2710 TCGA-60-2713 TCGA-60-2719 TCGA-66-2758 TCGA-66-2766 
       68.45        55.40        47.87        30.61        20.98         1.02 
TCGA-66-2767 TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 TCGA-66-2783 TCGA-66-2790 
        2.01        23.01         3.02         2.01        24.95        22.98 
TCGA-66-2800 TCGA-77-6844 TCGA-77-7142 TCGA-85-7696 TCGA-85-7698 TCGA-90-7766 
       49.05        75.09        42.25         0.59         1.61         1.55 
TCGA-94-7557 TCGA-94-7943 
        0.16         4.70 

$subtype3
TCGA-21-1070 TCGA-21-1071 TCGA-21-1081 TCGA-21-5782 TCGA-21-5786 TCGA-22-0940 
      115.59        46.88         9.30        31.63        21.57        19.99 
TCGA-22-4607 TCGA-22-5471 TCGA-22-5479 TCGA-22-5492 TCGA-33-4547 TCGA-34-5232 
       19.30        31.69        54.28        16.60        43.10        51.78 
TCGA-34-5236 TCGA-34-5928 TCGA-37-3789 TCGA-39-5011 TCGA-39-5019 TCGA-39-5021 
        9.04         5.52         0.43        47.80        44.71        68.58 
TCGA-39-5037 TCGA-43-5670 TCGA-43-6770 TCGA-46-6025 TCGA-56-6545 TCGA-56-7222 
        0.79        18.05         2.79         0.95         2.04         0.43 
TCGA-60-2698 TCGA-60-2703 TCGA-60-2720 TCGA-60-2721 TCGA-60-2724 TCGA-60-2726 
       10.22        96.82         3.16        26.07         1.22        11.77 
TCGA-66-2768 TCGA-66-2769 TCGA-66-2778 TCGA-66-2781 TCGA-66-2782 TCGA-66-2788 
        2.01         7.07        19.00         3.98        12.00        22.98 
TCGA-66-2791 TCGA-77-6845 TCGA-77-7337 TCGA-77-7338 TCGA-77-7463 TCGA-85-6560 
        5.03        23.28       106.95         0.16        46.78         0.36 
TCGA-85-6561 TCGA-85-6798 TCGA-85-7843 TCGA-92-7340 
        0.79         1.12         1.15         2.70 

$subtype4
TCGA-18-5595 TCGA-21-5784 TCGA-22-1011 TCGA-22-4596 TCGA-22-5472 TCGA-22-5473 
       27.16        29.85         1.74         0.56        64.90        63.52 
TCGA-22-5474 TCGA-22-5477 TCGA-22-5478 TCGA-22-5482 TCGA-22-5485 TCGA-33-6737 
       14.60        44.22         0.79        11.74        30.08        19.76 
TCGA-34-2596 TCGA-34-2604 TCGA-34-2609 TCGA-34-5234 TCGA-34-5241 TCGA-34-5927 
        2.63        31.50        31.23        32.68        14.07        22.95 
TCGA-34-7107 TCGA-39-5027 TCGA-39-5028 TCGA-52-7811 TCGA-56-5897 TCGA-56-6546 
        1.08        60.76         1.71         8.75         0.10         1.02 
TCGA-56-7221 TCGA-60-2696 TCGA-60-2697 TCGA-60-2706 TCGA-60-2725 TCGA-66-2727 
        0.99         3.58        12.23        82.19        23.64        16.96 
TCGA-66-2737 TCGA-68-7756 TCGA-85-7697 TCGA-85-7844 TCGA-90-6837 TCGA-90-7769 
        2.01         6.64         0.33         1.25         1.35         0.59 
TCGA-94-7033 TCGA-98-7454 
        2.86         3.78 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.16     0.16     0.10 
subtype1 subtype2 subtype3 subtype4 
  173.79    99.16   115.59    82.19 
subtype1 subtype2 subtype3 subtype4 
  16.830   22.995   11.885   10.245 
[1] "0.0 - 173.8 (16.8)" "0.2 - 99.2 (23.0)"  "0.2 - 115.6 (11.9)"
[4] "0.1 - 82.2 (10.2)" 
  [1] "subtype1" "subtype1" "subtype4" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype3" "subtype4" "subtype3" "subtype1"
 [19] "subtype3" "subtype1" "subtype4" "subtype2" "subtype4" "subtype2"
 [25] "subtype3" "subtype2" "subtype3" "subtype4" "subtype4" "subtype4"
 [31] "subtype4" "subtype4" "subtype3" "subtype1" "subtype4" "subtype1"
 [37] "subtype4" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
 [49] "subtype4" "subtype4" "subtype2" "subtype1" "subtype4" "subtype1"
 [55] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype4"
 [61] "subtype3" "subtype2" "subtype4" "subtype3" "subtype1" "subtype2"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
 [79] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype4" "subtype1" "subtype4" "subtype3"
[103] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype4"
[109] "subtype4" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[127] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[139] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype3" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[151] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[157] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype1"
[169] "subtype3" "subtype4" "subtype1" "subtype4" "subtype2" "subtype1"
[175] "subtype4" "subtype3" "subtype4" "subtype2" "subtype2" "subtype1"
[181] "subtype4"
  [1] "subtype1" "subtype1" "subtype4" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype3" "subtype4" "subtype3" "subtype1"
 [19] "subtype3" "subtype1" "subtype4" "subtype2" "subtype4" "subtype2"
 [25] "subtype3" "subtype2" "subtype3" "subtype4" "subtype4" "subtype4"
 [31] "subtype4" "subtype4" "subtype3" "subtype1" "subtype4" "subtype1"
 [37] "subtype4" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
 [49] "subtype4" "subtype4" "subtype2" "subtype1" "subtype4" "subtype1"
 [55] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype4"
 [61] "subtype3" "subtype2" "subtype4" "subtype3" "subtype1" "subtype2"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
 [79] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype4" "subtype1" "subtype4" "subtype3"
[103] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype4"
[109] "subtype4" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[127] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[139] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype3" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[151] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[157] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype1"
[169] "subtype3" "subtype4" "subtype1" "subtype4" "subtype2" "subtype1"
[175] "subtype4" "subtype3" "subtype4" "subtype2" "subtype2" "subtype1"
[181] "subtype4"
  [1] "subtype1" "subtype1" "subtype4" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype3" "subtype4" "subtype3" "subtype1"
 [19] "subtype3" "subtype1" "subtype4" "subtype2" "subtype4" "subtype2"
 [25] "subtype3" "subtype2" "subtype3" "subtype4" "subtype4" "subtype4"
 [31] "subtype4" "subtype4" "subtype3" "subtype1" "subtype4" "subtype1"
 [37] "subtype4" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
 [49] "subtype4" "subtype4" "subtype2" "subtype1" "subtype4" "subtype1"
 [55] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype4"
 [61] "subtype3" "subtype2" "subtype4" "subtype3" "subtype1" "subtype2"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
 [79] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype4" "subtype1" "subtype4" "subtype3"
[103] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype4"
[109] "subtype4" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[127] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[139] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype3" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[151] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[157] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype1"
[169] "subtype3" "subtype4" "subtype1" "subtype4" "subtype2" "subtype1"
[175] "subtype4" "subtype3" "subtype4" "subtype2" "subtype2" "subtype1"
[181] "subtype4"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 15 42
  subtype2 14 34
  subtype3 11 38
  subtype4  9 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15   42
  subtype2   14   34
  subtype3   11   38
  subtype4    9   31
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       15       14       11        9
  MALE         42       34       38       31
D6V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     3
  subtype2                                     0
  subtype3                                     0
  subtype4                                     0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
  subtype4                                      0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
  subtype4                                      0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          52
  subtype2                                                          48
  subtype3                                                          49
  subtype4                                                          40
D6V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 14 32  5  6
  subtype2 16 25  5  2
  subtype3  6 36  6  1
  subtype4  8 26  4  2
D6V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 33 16  8  0
  subtype2 32  9  4  2
  subtype3 29 17  1  2
  subtype4 30  8  2  0
D6V7, multiclass
          vv
clus       M0 MX
  subtype1 52  5
  subtype2 45  3
  subtype3 45  2
  subtype4 33  6
D6V8, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0       52       45       45       33
  MX        5        3        2        6
          vv
clus        I II III
  subtype1 25 18  14
  subtype2 28 10  10
  subtype3 21 19   8
  subtype4 24 10   4
D6V9, multiclass
D6V10, binary
          cls
clus        0  1
  subtype1  3 54
  subtype2  3 45
  subtype3  1 48
  subtype4  1 39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   54
  subtype2    3   45
  subtype3    1   48
  subtype4    1   39
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         3        3        1        1
  YES       54       45       48       39
D6V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          26
  subtype2                                          22
  subtype3                                          29
  subtype4                                          14
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     13             10
  subtype2                                     13             12
  subtype3                                      8              8
  subtype4                                     14              9
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   6
  subtype2                   1
  subtype3                   2
  subtype4                   1
D6V12, multiclass
D6V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 45  0  0  5
  subtype2 37  0  2  0
  subtype3 36  4  2  2
  subtype4 25  0  0  2
D6V14, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 33 24
  subtype2 47 29
  subtype3 42 31
  subtype4 19 16
subtype1 subtype2 subtype3 subtype4 
      57       76       73       35 
subtype1 subtype2 subtype3 subtype4 
      24       29       31       16 
$subtype1
TCGA-18-3406 TCGA-18-3407 TCGA-18-3412 TCGA-18-3414 TCGA-21-1070 TCGA-21-1079 
       12.16         4.47        11.34        13.02       115.59        31.69 
TCGA-21-1080 TCGA-21-1081 TCGA-21-1082 TCGA-22-0944 TCGA-22-1011 TCGA-22-1012 
      122.43         9.30       119.80         7.33         1.74        14.10 
TCGA-22-4595 TCGA-22-4607 TCGA-22-5471 TCGA-22-5491 TCGA-33-4547 TCGA-34-5232 
       24.13        19.30        31.69        56.32        43.10        51.78 
TCGA-34-5236 TCGA-34-5241 TCGA-37-3783 TCGA-37-3789 TCGA-39-5024 TCGA-39-5028 
        9.04        14.07         3.95         0.43        70.03         1.71 
TCGA-39-5029 TCGA-43-6771 TCGA-56-5897 TCGA-56-7221 TCGA-56-7579 TCGA-56-7822 
       24.33         5.42         0.10         0.99         1.45         0.03 
TCGA-60-2707 TCGA-60-2708 TCGA-60-2716 TCGA-60-2721 TCGA-60-2724 TCGA-66-2734 
       21.70        68.45        38.83        26.07         1.22        43.10 
TCGA-66-2742 TCGA-66-2759 TCGA-66-2763 TCGA-66-2765 TCGA-66-2767 TCGA-66-2771 
       21.07        25.02         0.99         2.01         2.01        19.00 
TCGA-66-2778 TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 TCGA-66-2788 TCGA-77-6844 
       19.00        12.03         3.98        12.00        22.98        75.09 
TCGA-77-7138 TCGA-77-7335 TCGA-77-7337 TCGA-77-7463 TCGA-77-8008 TCGA-90-6837 
       11.18        70.09       106.95        46.78        86.76         1.35 
TCGA-92-7340 TCGA-94-7033 TCGA-96-7544 
        2.70         2.86        39.88 

$subtype2
TCGA-18-3408 TCGA-18-3411 TCGA-18-3415 TCGA-18-3416 TCGA-18-4083 TCGA-18-4086 
       81.07        46.52        59.51        28.34         6.15         2.79 
TCGA-18-4721 TCGA-18-5592 TCGA-18-5595 TCGA-21-1071 TCGA-21-1072 TCGA-21-1075 
       90.51         3.02        27.16        46.88        99.16        70.13 
TCGA-21-1076 TCGA-21-1077 TCGA-22-4599 TCGA-22-4601 TCGA-22-4604 TCGA-22-4613 
       60.89        34.78        38.17        34.75        13.12        11.77 
TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 TCGA-22-5479 TCGA-22-5482 TCGA-22-5485 
       63.52        14.60        44.22        54.28        11.74        30.08 
TCGA-33-4532 TCGA-33-4538 TCGA-33-4583 TCGA-33-4586 TCGA-34-2596 TCGA-34-5240 
       82.98        97.94       141.34        14.07         2.63         7.73 
TCGA-34-7107 TCGA-37-4133 TCGA-39-5016 TCGA-39-5019 TCGA-39-5021 TCGA-39-5027 
        1.08         7.82        74.07        44.71        68.58        60.76 
TCGA-39-5036 TCGA-39-5037 TCGA-43-3394 TCGA-43-6770 TCGA-46-3768 TCGA-46-6025 
       35.64         0.79        11.57         2.79         9.96         0.95 
TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-51-6867 TCGA-56-7582 TCGA-60-2709 
        0.39         0.39         2.07        60.99         0.85        49.48 
TCGA-60-2710 TCGA-60-2711 TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 TCGA-66-2737 
       55.40        29.19        24.10        22.78        16.96         2.01 
TCGA-66-2758 TCGA-66-2766 TCGA-66-2770 TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 
       20.98         1.02        23.01        40.01         5.03        30.02 
TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 
       54.08         4.01        49.05        73.08        23.28        89.95 
TCGA-77-7140 TCGA-77-7141 TCGA-77-7142 TCGA-77-7338 TCGA-77-8009 TCGA-85-6561 
       20.78         0.49        42.25         0.16        53.95         0.79 
TCGA-85-6798 TCGA-85-7844 TCGA-92-7341 TCGA-96-7545 
        1.12         1.25         3.48        58.42 

$subtype3
TCGA-18-3409 TCGA-18-3410 TCGA-18-3417 TCGA-18-3419 TCGA-21-1078 TCGA-21-1083 
       79.46         4.80        24.92         1.61        15.55         8.78 
TCGA-21-5782 TCGA-21-5783 TCGA-21-5786 TCGA-22-0940 TCGA-22-1016 TCGA-22-4593 
       31.63        88.08        21.57        19.99        27.02        35.08 
TCGA-22-4594 TCGA-22-5478 TCGA-22-5480 TCGA-22-5481 TCGA-22-5483 TCGA-22-5489 
       48.33         0.79        71.34        79.20        18.84        62.86 
TCGA-33-4533 TCGA-33-4566 TCGA-33-4582 TCGA-33-4587 TCGA-34-2600 TCGA-34-5231 
      114.05       173.79       103.53        54.44        61.61        50.24 
TCGA-34-5239 TCGA-34-5927 TCGA-34-5928 TCGA-34-5929 TCGA-37-3792 TCGA-37-4129 
       10.82        22.95         5.52         4.96         0.39         6.54 
TCGA-37-4130 TCGA-37-4132 TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5030 
        8.09         7.46         6.81         0.39         3.39         1.94 
TCGA-39-5031 TCGA-39-5034 TCGA-43-2581 TCGA-43-3920 TCGA-43-5668 TCGA-43-6143 
       27.35        36.39        13.12        18.84         8.48         7.00 
TCGA-43-6647 TCGA-43-7656 TCGA-46-6026 TCGA-56-6545 TCGA-56-6546 TCGA-56-7223 
        6.02         6.97         0.59         2.04         1.02         0.99 
TCGA-56-7580 TCGA-60-2695 TCGA-60-2703 TCGA-60-2704 TCGA-60-2712 TCGA-60-2713 
        1.32        15.55        96.82        37.94         9.01        47.87 
TCGA-60-2720 TCGA-60-2726 TCGA-66-2744 TCGA-66-2754 TCGA-66-2755 TCGA-66-2756 
        3.16        11.77         0.99         2.01         0.92         0.99 
TCGA-66-2757 TCGA-66-2768 TCGA-66-2769 TCGA-66-2785 TCGA-66-2789 TCGA-66-2790 
        0.99         2.01         7.07         1.94         4.04        22.98 
TCGA-66-2793 TCGA-77-6842 TCGA-77-7465 TCGA-77-8007 TCGA-85-6560 TCGA-85-7950 
       10.06        29.56        15.75         6.51         0.36         1.97 
TCGA-94-7557 
        0.16 

$subtype4
TCGA-18-3421 TCGA-21-5784 TCGA-21-5787 TCGA-22-1002 TCGA-22-1017 TCGA-22-4591 
       43.76        29.85        10.82         4.31        48.82        20.45 
TCGA-22-4596 TCGA-22-4605 TCGA-22-5472 TCGA-22-5492 TCGA-33-6737 TCGA-33-6738 
        0.56        32.02        64.90        16.60        19.76        26.99 
TCGA-34-2608 TCGA-34-5234 TCGA-39-5011 TCGA-39-5035 TCGA-39-5039 TCGA-43-2578 
       32.84        32.68        47.80        15.58        17.88        18.08 
TCGA-56-1622 TCGA-56-7222 TCGA-60-2696 TCGA-60-2698 TCGA-60-2706 TCGA-60-2714 
       28.93         0.43         3.58        10.22        82.19        16.83 
TCGA-60-2715 TCGA-60-2719 TCGA-60-2725 TCGA-66-2753 TCGA-66-2773 TCGA-66-2777 
       35.34        30.61        23.64         1.02         3.02         2.01 
TCGA-66-2783 TCGA-66-2786 TCGA-90-7964 TCGA-94-7943 TCGA-98-7454 
       24.95        25.97         3.29         4.70         3.78 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.16     0.16     0.43 
subtype1 subtype2 subtype3 subtype4 
  122.43   141.34   173.79    82.19 
subtype1 subtype2 subtype3 subtype4 
   14.10    25.63     8.78    19.76 
[1] "0.0 - 122.4 (14.1)" "0.2 - 141.3 (25.6)" "0.2 - 173.8 (8.8)" 
[4] "0.4 - 82.2 (19.8)" 
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
 [37] "subtype1" "subtype4" "subtype1" "subtype1" "subtype3" "subtype4"
 [43] "subtype4" "subtype3" "subtype3" "subtype1" "subtype4" "subtype2"
 [49] "subtype2" "subtype2" "subtype4" "subtype1" "subtype2" "subtype1"
 [55] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype4" "subtype2" "subtype3" "subtype2" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype4"
 [79] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
 [85] "subtype4" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[127] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype3"
[139] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype3" "subtype4" "subtype4" "subtype3"
[151] "subtype3" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
[163] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[169] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[175] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
[199] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[205] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[223] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype1"
[235] "subtype2" "subtype1" "subtype3" "subtype4" "subtype1" "subtype2"
[241] "subtype4"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
 [37] "subtype1" "subtype4" "subtype1" "subtype1" "subtype3" "subtype4"
 [43] "subtype4" "subtype3" "subtype3" "subtype1" "subtype4" "subtype2"
 [49] "subtype2" "subtype2" "subtype4" "subtype1" "subtype2" "subtype1"
 [55] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype4" "subtype2" "subtype3" "subtype2" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype4"
 [79] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
 [85] "subtype4" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[127] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype3"
[139] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype3" "subtype4" "subtype4" "subtype3"
[151] "subtype3" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
[163] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[169] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[175] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
[199] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[205] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[223] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype1"
[235] "subtype2" "subtype1" "subtype3" "subtype4" "subtype1" "subtype2"
[241] "subtype4"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
 [37] "subtype1" "subtype4" "subtype1" "subtype1" "subtype3" "subtype4"
 [43] "subtype4" "subtype3" "subtype3" "subtype1" "subtype4" "subtype2"
 [49] "subtype2" "subtype2" "subtype4" "subtype1" "subtype2" "subtype1"
 [55] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype4" "subtype2" "subtype3" "subtype2" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype4"
 [79] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
 [85] "subtype4" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[127] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype3"
[139] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype3" "subtype4" "subtype4" "subtype3"
[151] "subtype3" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
[163] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[169] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[175] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
[199] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[205] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[223] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype1"
[235] "subtype2" "subtype1" "subtype3" "subtype4" "subtype1" "subtype2"
[241] "subtype4"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 12 48
  subtype2 18 63
  subtype3 24 55
  subtype4 13 25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   12   48
  subtype2   18   63
  subtype3   24   55
  subtype4   13   25
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       12       18       24       13
  MALE         48       63       55       25
D7V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     0
  subtype2                                     3
  subtype3                                     3
  subtype4                                     0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      0
  subtype4                                      0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
  subtype4                                      0
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       0
  subtype2                                       0
  subtype3                                       1
  subtype4                                       0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          59
  subtype2                                                          77
  subtype3                                                          75
  subtype4                                                          38
D7V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1  7 39 11  3
  subtype2 13 55  7  6
  subtype3 21 48  5  5
  subtype4 15 21  2  0
D7V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 37 15  6  2
  subtype2 50 25  5  1
  subtype3 49 25  4  1
  subtype4 28  3  5  1
D7V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 49  2  6
  subtype2 75  0  4
  subtype3 72  2  5
  subtype4 34  0  3
D7V8, multiclass
          vv
clus        I II III IV
  subtype1 30 13  14  2
  subtype2 42 25  14  0
  subtype3 37 24  14  2
  subtype4 26  4   7  0
D7V9, multiclass
D7V10, binary
          cls
clus        0  1
  subtype1  3 57
  subtype2  1 80
  subtype3  2 77
  subtype4  2 36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   57
  subtype2    1   80
  subtype3    2   77
  subtype4    2   36
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         3        1        2        2
  YES       57       80       77       36
D7V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          30
  subtype2                                          40
  subtype3                                          39
  subtype4                                          24
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     17              6
  subtype2                                     14             24
  subtype3                                     22             11
  subtype4                                      9              4
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   3
  subtype2                   3
  subtype3                   5
  subtype4                   1
D7V12, multiclass
D7V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 46  1  2  2
  subtype2 71  2  0  3
  subtype3 64  2  1  3
  subtype4 28  0  1  4
D7V14, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 58 48
  subtype2 48 33
  subtype3 35 19
subtype1 subtype2 subtype3 
     106       81       54 
subtype1 subtype2 subtype3 
      48       33       19 
$subtype1
TCGA-18-3406 TCGA-18-3414 TCGA-18-3417 TCGA-18-3419 TCGA-18-3421 TCGA-21-1070 
       12.16        13.02        24.92         1.61        43.76       115.59 
TCGA-21-1078 TCGA-21-1079 TCGA-21-1080 TCGA-21-1081 TCGA-21-1082 TCGA-21-5782 
       15.55        31.69       122.43         9.30       119.80        31.63 
TCGA-21-5784 TCGA-21-5787 TCGA-22-0940 TCGA-22-0944 TCGA-22-1002 TCGA-22-1011 
       29.85        10.82        19.99         7.33         4.31         1.74 
TCGA-22-1012 TCGA-22-1016 TCGA-22-1017 TCGA-22-4591 TCGA-22-4595 TCGA-22-4596 
       14.10        27.02        48.82        20.45        24.13         0.56 
TCGA-22-4605 TCGA-22-4607 TCGA-22-5472 TCGA-22-5479 TCGA-22-5491 TCGA-22-5492 
       32.02        19.30        64.90        54.28        56.32        16.60 
TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 TCGA-33-4582 TCGA-33-6737 TCGA-34-2600 
       97.94        43.10       173.79       103.53        19.76        61.61 
TCGA-34-2608 TCGA-34-5232 TCGA-34-5234 TCGA-34-5236 TCGA-34-5241 TCGA-37-3783 
       32.84        51.78        32.68         9.04        14.07         3.95 
TCGA-37-3789 TCGA-37-3792 TCGA-39-5011 TCGA-39-5019 TCGA-39-5024 TCGA-39-5027 
        0.43         0.39        47.80        44.71        70.03        60.76 
TCGA-39-5028 TCGA-39-5029 TCGA-39-5031 TCGA-39-5039 TCGA-43-2581 TCGA-43-5668 
        1.71        24.33        27.35        17.88        13.12         8.48 
TCGA-43-6647 TCGA-43-6771 TCGA-56-1622 TCGA-56-5897 TCGA-56-6545 TCGA-56-7221 
        6.02         5.42        28.93         0.10         2.04         0.99 
TCGA-56-7222 TCGA-56-7580 TCGA-56-7822 TCGA-60-2696 TCGA-60-2698 TCGA-60-2704 
        0.43         1.32         0.03         3.58        10.22        37.94 
TCGA-60-2707 TCGA-60-2708 TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 
       21.70        68.45        16.83        35.34        38.83        30.61 
TCGA-60-2721 TCGA-60-2724 TCGA-60-2725 TCGA-60-2726 TCGA-66-2734 TCGA-66-2742 
       26.07         1.22        23.64        11.77        43.10        21.07 
TCGA-66-2744 TCGA-66-2753 TCGA-66-2763 TCGA-66-2765 TCGA-66-2768 TCGA-66-2769 
        0.99         1.02         0.99         2.01         2.01         7.07 
TCGA-66-2771 TCGA-66-2777 TCGA-66-2778 TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 
       19.00         2.01        19.00        12.03         3.98        12.00 
TCGA-66-2783 TCGA-66-2785 TCGA-66-2786 TCGA-66-2788 TCGA-66-2789 TCGA-66-2794 
       24.95         1.94        25.97        22.98         4.04        54.08 
TCGA-77-6844 TCGA-77-7138 TCGA-77-7337 TCGA-77-8007 TCGA-77-8008 TCGA-90-6837 
       75.09        11.18       106.95         6.51        86.76         1.35 
TCGA-92-7340 TCGA-94-7033 TCGA-96-7544 TCGA-98-7454 
        2.70         2.86        39.88         3.78 

$subtype2
TCGA-18-3407 TCGA-18-3408 TCGA-18-3411 TCGA-18-3412 TCGA-18-3415 TCGA-18-3416 
        4.47        81.07        46.52        11.34        59.51        28.34 
TCGA-18-4083 TCGA-18-4086 TCGA-18-4721 TCGA-18-5592 TCGA-18-5595 TCGA-21-1071 
        6.15         2.79        90.51         3.02        27.16        46.88 
TCGA-21-1072 TCGA-21-1075 TCGA-21-1076 TCGA-21-1077 TCGA-22-4599 TCGA-22-4601 
       99.16        70.13        60.89        34.78        38.17        34.75 
TCGA-22-4604 TCGA-22-4613 TCGA-22-5471 TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 
       13.12        11.77        31.69        63.52        14.60        44.22 
TCGA-22-5482 TCGA-22-5485 TCGA-33-4532 TCGA-33-4583 TCGA-33-4586 TCGA-34-2596 
       11.74        30.08        82.98       141.34        14.07         2.63 
TCGA-34-5240 TCGA-34-7107 TCGA-37-4133 TCGA-39-5016 TCGA-39-5021 TCGA-39-5036 
        7.73         1.08         7.82        74.07        68.58        35.64 
TCGA-39-5037 TCGA-43-3394 TCGA-43-6770 TCGA-46-3768 TCGA-46-6025 TCGA-51-4079 
        0.79        11.57         2.79         9.96         0.95         0.39 
TCGA-51-4080 TCGA-51-4081 TCGA-51-6867 TCGA-56-7579 TCGA-56-7582 TCGA-60-2709 
        0.39         2.07        60.99         1.45         0.85        49.48 
TCGA-60-2710 TCGA-60-2711 TCGA-60-2713 TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 
       55.40        29.19        47.87        24.10        22.78        16.96 
TCGA-66-2737 TCGA-66-2758 TCGA-66-2759 TCGA-66-2766 TCGA-66-2767 TCGA-66-2770 
        2.01        20.98        25.02         1.02         2.01        23.01 
TCGA-66-2773 TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 TCGA-66-2795 TCGA-66-2800 
        3.02        40.01         5.03        30.02         4.01        49.05 
TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 TCGA-77-7140 TCGA-77-7141 TCGA-77-7142 
       73.08        23.28        89.95        20.78         0.49        42.25 
TCGA-77-7335 TCGA-77-7338 TCGA-77-7463 TCGA-77-8009 TCGA-85-6561 TCGA-85-6798 
       70.09         0.16        46.78        53.95         0.79         1.12 
TCGA-85-7844 TCGA-92-7341 TCGA-96-7545 
        1.25         3.48        58.42 

$subtype3
TCGA-18-3409 TCGA-18-3410 TCGA-21-1083 TCGA-21-5783 TCGA-21-5786 TCGA-22-4593 
       79.46         4.80         8.78        88.08        21.57        35.08 
TCGA-22-4594 TCGA-22-5478 TCGA-22-5480 TCGA-22-5481 TCGA-22-5483 TCGA-22-5489 
       48.33         0.79        71.34        79.20        18.84        62.86 
TCGA-33-4533 TCGA-33-4587 TCGA-33-6738 TCGA-34-5231 TCGA-34-5239 TCGA-34-5927 
      114.05        54.44        26.99        50.24        10.82        22.95 
TCGA-34-5928 TCGA-34-5929 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 TCGA-37-4135 
        5.52         4.96         6.54         8.09         7.46         6.81 
TCGA-37-4141 TCGA-37-5819 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-43-2578 
        0.39         3.39         1.94        36.39        15.58        18.08 
TCGA-43-3920 TCGA-43-6143 TCGA-43-7656 TCGA-46-6026 TCGA-56-6546 TCGA-56-7223 
       18.84         7.00         6.97         0.59         1.02         0.99 
TCGA-60-2695 TCGA-60-2703 TCGA-60-2706 TCGA-60-2712 TCGA-60-2720 TCGA-66-2754 
       15.55        96.82        82.19         9.01         3.16         2.01 
TCGA-66-2755 TCGA-66-2756 TCGA-66-2757 TCGA-66-2790 TCGA-66-2793 TCGA-77-6842 
        0.92         0.99         0.99        22.98        10.06        29.56 
TCGA-77-7465 TCGA-85-6560 TCGA-85-7950 TCGA-90-7964 TCGA-94-7557 TCGA-94-7943 
       15.75         0.36         1.97         3.29         0.16         4.70 

subtype1 subtype2 subtype3 
    0.03     0.16     0.16 
subtype1 subtype2 subtype3 
  173.79   141.34   114.05 
subtype1 subtype2 subtype3 
  19.000   23.010    8.895 
[1] "0.0 - 173.8 (19.0)" "0.2 - 141.3 (23.0)" "0.2 - 114.0 (8.9)" 
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [79] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[127] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[151] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[205] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[235] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[241] "subtype1"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [79] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[127] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[151] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[205] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[235] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[241] "subtype1"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [79] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[127] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[151] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[205] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[235] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[241] "subtype1"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 29 87
  subtype2 19 68
  subtype3 19 36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   29   87
  subtype2   19   68
  subtype3   19   36
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       29       19       19
  MALE         87       68       36
D8V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     0
  subtype2                                     3
  subtype3                                     3
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       0
  subtype2                                       0
  subtype3                                       1
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                         115
  subtype2                                                          83
  subtype3                                                          51
D8V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 24 74 13  5
  subtype2 14 59  8  6
  subtype3 18 30  4  3
D8V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 74 29 10  3
  subtype2 54 26  5  2
  subtype3 36 13  5  0
D8V7, multiclass
          vv
clus        M0  M1  MX
  subtype1 102   3   7
  subtype2  81   0   4
  subtype3  47   1   7
D8V8, multiclass
          vv
clus        I II III IV
  subtype1 61 29  21  3
  subtype2 46 25  16  0
  subtype3 28 12  12  1
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   4 112
  subtype2   2  85
  subtype3   2  53
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  112
  subtype2    2   85
  subtype3    2   53
     clus
vv    subtype1 subtype2 subtype3
  NO         4        2        2
  YES      112       85       53
D8V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          63
  subtype2                                          42
  subtype3                                          28
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     28             15
  subtype2                                     18             24
  subtype3                                     16              6
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   6
  subtype2                   3
  subtype3                   3
D8V12, multiclass
D8V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 91  3  2  8
  subtype2 77  2  1  2
  subtype3 41  0  1  2
D8V14, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2       0  1
  subtype1 76 58
  subtype2 79 38
  subtype3 22 11
subtype1 subtype2 subtype3 
     134      117       33 
subtype1 subtype2 subtype3 
      58       38       11 
$subtype1
TCGA-18-3406 TCGA-18-3407 TCGA-18-3408 TCGA-18-3410 TCGA-18-3411 TCGA-18-3412 
       12.16         4.47        81.07         4.80        46.52        11.34 
TCGA-18-3414 TCGA-18-3415 TCGA-18-3416 TCGA-18-3417 TCGA-18-3419 TCGA-18-3421 
       13.02        59.51        28.34        24.92         1.61        43.76 
TCGA-18-4086 TCGA-18-4721 TCGA-21-1072 TCGA-21-1075 TCGA-21-1077 TCGA-21-1078 
        2.79        90.51        99.16        70.13        34.78        15.55 
TCGA-21-1079 TCGA-21-1080 TCGA-21-1083 TCGA-21-5782 TCGA-21-5784 TCGA-21-5786 
       31.69       122.43         8.78        31.63        29.85        21.57 
TCGA-21-5787 TCGA-22-0940 TCGA-22-0944 TCGA-22-1011 TCGA-22-1012 TCGA-22-4591 
       10.82        19.99         7.33         1.74        14.10        20.45 
TCGA-22-4594 TCGA-22-4595 TCGA-22-4596 TCGA-22-4601 TCGA-22-4604 TCGA-22-4607 
       48.33        24.13         0.56        34.75        13.12        19.30 
TCGA-22-4613 TCGA-22-5471 TCGA-22-5473 TCGA-22-5474 TCGA-22-5478 TCGA-22-5480 
       11.77        31.69        63.52        14.60         0.79        71.34 
TCGA-22-5481 TCGA-22-5489 TCGA-22-5491 TCGA-22-5492 TCGA-33-4532 TCGA-33-4533 
       79.20        62.86        56.32        16.60        82.98       114.05 
TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 TCGA-33-4582 TCGA-33-4583 TCGA-33-4586 
       97.94        43.10       173.79       103.53       141.34        14.07 
TCGA-33-4589 TCGA-34-2604 TCGA-34-2605 TCGA-34-5241 TCGA-37-3789 TCGA-37-3792 
       10.98        31.50        28.96        14.07         0.43         0.39 
TCGA-37-4130 TCGA-37-4133 TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5011 
        8.09         7.82         6.81         0.39         3.39        47.80 
TCGA-39-5021 TCGA-39-5028 TCGA-39-5029 TCGA-39-5030 TCGA-39-5031 TCGA-39-5034 
       68.58         1.71        24.33         1.94        27.35        36.39 
TCGA-39-5035 TCGA-39-5036 TCGA-39-5037 TCGA-39-5039 TCGA-43-2576 TCGA-43-2578 
       15.58        35.64         0.79        17.88        18.28        18.08 
TCGA-43-2581 TCGA-43-3394 TCGA-43-3920 TCGA-43-5668 TCGA-46-3768 TCGA-51-4079 
       13.12        11.57        18.84         8.48         9.96         0.39 
TCGA-51-4080 TCGA-51-4081 TCGA-56-1622 TCGA-56-5897 TCGA-60-2695 TCGA-60-2696 
        0.39         2.07        28.93         0.10        15.55         3.58 
TCGA-60-2698 TCGA-60-2706 TCGA-60-2708 TCGA-60-2711 TCGA-60-2712 TCGA-60-2713 
       10.22        82.19        68.45        29.19         9.01        47.87 
TCGA-60-2714 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 TCGA-60-2722 
       16.83        38.83        30.61         3.16        26.07        24.10 
TCGA-60-2723 TCGA-60-2724 TCGA-66-2727 TCGA-66-2734 TCGA-66-2737 TCGA-66-2742 
       22.78         1.22        16.96        43.10         2.01        21.07 
TCGA-66-2744 TCGA-66-2753 TCGA-66-2754 TCGA-66-2755 TCGA-66-2758 TCGA-66-2759 
        0.99         1.02         2.01         0.92        20.98        25.02 
TCGA-66-2763 TCGA-66-2765 TCGA-66-2766 TCGA-66-2767 TCGA-66-2768 TCGA-66-2771 
        0.99         2.01         1.02         2.01         2.01        19.00 
TCGA-66-2777 TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 
        2.01        12.03         3.98        12.00        24.95         1.94 
TCGA-66-2786 TCGA-66-2788 TCGA-66-2789 TCGA-66-2790 TCGA-66-2791 TCGA-66-2792 
       25.97        22.98         4.04        22.98         5.03        30.02 
TCGA-66-2793 TCGA-66-2795 
       10.06         4.01 

$subtype2
TCGA-21-5783 TCGA-22-4593 TCGA-22-4605 TCGA-22-5479 TCGA-22-5483 TCGA-33-4587 
       88.08        35.08        32.02        54.28        18.84        54.44 
TCGA-33-6737 TCGA-33-6738 TCGA-34-5231 TCGA-34-5232 TCGA-34-5236 TCGA-34-5239 
       19.76        26.99        50.24        51.78         9.04        10.82 
TCGA-34-5927 TCGA-34-5928 TCGA-34-5929 TCGA-34-7107 TCGA-37-3783 TCGA-39-5019 
       22.95         5.52         4.96         1.08         3.95        44.71 
TCGA-39-5022 TCGA-39-5024 TCGA-39-5027 TCGA-43-5670 TCGA-43-6143 TCGA-43-6647 
       55.17        70.03        60.76        18.05         7.00         6.02 
TCGA-43-6771 TCGA-43-6773 TCGA-43-7656 TCGA-43-7657 TCGA-43-7658 TCGA-43-8115 
        5.42         3.78         6.97         1.58        66.51         6.64 
TCGA-43-8116 TCGA-46-6025 TCGA-46-6026 TCGA-51-6867 TCGA-52-7809 TCGA-52-7810 
        6.35         0.95         0.59        60.99         5.85        30.31 
TCGA-52-7811 TCGA-52-7812 TCGA-56-6545 TCGA-56-6546 TCGA-56-7222 TCGA-56-7223 
        8.75        27.45         2.04         1.02         0.43         0.99 
TCGA-56-7579 TCGA-56-7580 TCGA-56-7822 TCGA-60-2697 TCGA-60-2703 TCGA-60-2704 
        1.45         1.32         0.03        12.23        96.82        37.94 
TCGA-68-7755 TCGA-68-7756 TCGA-68-7757 TCGA-68-8250 TCGA-68-8251 TCGA-77-6842 
        2.73         6.64         6.94         8.02         3.12        29.56 
TCGA-77-6844 TCGA-77-6845 TCGA-77-7138 TCGA-77-7139 TCGA-77-7140 TCGA-77-7142 
       75.09        23.28        11.18        89.95        20.78        42.25 
TCGA-77-7335 TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 TCGA-77-8007 TCGA-77-8008 
       70.09       106.95        46.78        15.75         6.51        86.76 
TCGA-77-8128 TCGA-77-8130 TCGA-77-8131 TCGA-77-8133 TCGA-77-8136 TCGA-77-8138 
       37.81        82.92        12.59        53.92        39.09        17.69 
TCGA-77-8139 TCGA-77-8140 TCGA-77-8143 TCGA-77-8144 TCGA-77-8145 TCGA-77-8146 
      104.09        11.54        26.40        27.39         6.97        71.77 
TCGA-77-8148 TCGA-77-8150 TCGA-77-8154 TCGA-77-8156 TCGA-85-6560 TCGA-85-6561 
        9.63        54.41        35.90         0.33         0.36         0.79 
TCGA-85-7696 TCGA-85-7697 TCGA-85-7698 TCGA-85-7699 TCGA-85-7843 TCGA-85-7950 
        0.59         0.33         1.61         0.03         1.15         1.97 
TCGA-85-8048 TCGA-85-8049 TCGA-85-8052 TCGA-85-8070 TCGA-85-8276 TCGA-85-8287 
        0.85         1.97         0.53         1.41         0.43         1.45 
TCGA-85-8288 TCGA-90-6837 TCGA-90-7766 TCGA-90-7767 TCGA-90-7769 TCGA-90-7964 
        1.78         1.35         1.55         2.93         0.59         3.29 
TCGA-92-7340 TCGA-92-7341 TCGA-92-8063 TCGA-92-8064 TCGA-92-8065 TCGA-94-7033 
        2.70         3.48         4.01         5.26         2.27         2.86 
TCGA-94-7557 TCGA-94-7943 TCGA-96-7544 TCGA-96-7545 TCGA-96-8169 TCGA-96-8170 
        0.16         4.70        39.88        58.42         6.18         6.90 
TCGA-98-7454 TCGA-98-8021 TCGA-98-8022 
        3.78        13.58         7.33 

$subtype3
TCGA-21-1076 TCGA-22-4609 TCGA-22-5472 TCGA-22-5477 TCGA-22-5482 TCGA-22-5485 
       60.89         9.53        64.90        44.22        11.74        30.08 
TCGA-34-2596 TCGA-34-2600 TCGA-34-2608 TCGA-34-2609 TCGA-34-5234 TCGA-34-5240 
        2.63        61.61        32.84        31.23        32.68         7.73 
TCGA-43-6770 TCGA-52-7622 TCGA-56-7221 TCGA-56-7582 TCGA-56-7730 TCGA-60-2709 
        2.79        17.79         0.99         0.85         0.20        49.48 
TCGA-60-2710 TCGA-60-2725 TCGA-66-2770 TCGA-66-2787 TCGA-66-2794 TCGA-66-2800 
       55.40        23.64        23.01        40.01        54.08        49.05 
TCGA-77-6843 TCGA-77-7141 TCGA-77-7338 TCGA-77-8009 TCGA-85-6798 TCGA-85-7844 
       73.08         0.49         0.16        53.95         1.12         1.25 
TCGA-85-8071 TCGA-85-8072 TCGA-98-8023 
        0.46         1.18        10.13 

subtype1 subtype2 subtype3 
    0.10     0.03     0.16 
subtype1 subtype2 subtype3 
  173.79   106.95    73.08 
subtype1 subtype2 subtype3 
  16.895    6.970   23.010 
[1] "0.1 - 173.8 (16.9)" "0.0 - 107.0 (7.0)"  "0.2 - 73.1 (23.0)" 
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype3"
D9V2, continuous
D9V3, binary
          cls
clus         0   1
  subtype1  40 101
  subtype2  30  96
  subtype3   8  25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   40  101
  subtype2   30   96
  subtype3    8   25
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       40       30        8
  MALE        101       96       25
D9V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     2
  subtype3                                     1
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      0
  subtype3                                      0
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       0
  subtype2                                       1
  subtype3                                       0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                         138
  subtype2                                                         122
  subtype3                                                          32
D9V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 29 92 11  9
  subtype2 33 70 18  5
  subtype3 10 19  2  2
D9V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 87 35 15  4
  subtype2 74 40 10  0
  subtype3 22 10  1  0
D9V7, multiclass
          vv
clus        M0  M1  MX
  subtype1 133   3   1
  subtype2  98   0  27
  subtype3  30   0   2
D9V8, multiclass
          vv
clus        I II III IV
  subtype1 77 29  32  3
  subtype2 57 46  21  0
  subtype3 19  8   5  0
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1   4 137
  subtype2   6 120
  subtype3   0  33
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  137
  subtype2    6  120
  subtype3    0   33
     clus
vv    subtype1 subtype2 subtype3
  NO         4        6        0
  YES      137      120       33
D9V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          75
  subtype2                                          59
  subtype3                                          12
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     35             26
  subtype2                                     25             30
  subtype3                                      7             14
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   5
  subtype2                   6
  subtype3                   0
D9V12, multiclass
D9V13, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 128   2   2   3
  subtype2  77   2   1  10
  subtype3  27   1   0   1
D9V14, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2       0  1
  subtype1 29 17
  subtype2 94 53
  subtype3 54 37
subtype1 subtype2 subtype3 
      46      147       91 
subtype1 subtype2 subtype3 
      17       53       37 
$subtype1
TCGA-18-3408 TCGA-18-4086 TCGA-18-4721 TCGA-21-1072 TCGA-21-1076 TCGA-21-1077 
       81.07         2.79        90.51        99.16        60.89        34.78 
TCGA-22-4605 TCGA-22-4609 TCGA-22-5471 TCGA-22-5473 TCGA-22-5477 TCGA-22-5482 
       32.02         9.53        31.69        63.52        44.22        11.74 
TCGA-33-4583 TCGA-33-4589 TCGA-34-2596 TCGA-34-2605 TCGA-34-5240 TCGA-39-5022 
      141.34        10.98         2.63        28.96         7.73        55.17 
TCGA-43-6770 TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-56-7221 TCGA-56-7222 
        2.79         0.39         0.39         2.07         0.99         0.43 
TCGA-56-7582 TCGA-56-7730 TCGA-60-2709 TCGA-60-2710 TCGA-60-2722 TCGA-66-2727 
        0.85         0.20        49.48        55.40        24.10        16.96 
TCGA-66-2737 TCGA-66-2758 TCGA-66-2770 TCGA-66-2787 TCGA-66-2791 TCGA-66-2794 
        2.01        20.98        23.01        40.01         5.03        54.08 
TCGA-66-2795 TCGA-77-6843 TCGA-77-7338 TCGA-77-8009 TCGA-85-6798 TCGA-85-7844 
        4.01        73.08         0.16        53.95         1.12         1.25 
TCGA-85-8052 TCGA-85-8071 TCGA-85-8072 TCGA-90-7769 
        0.53         0.46         1.18         0.59 

$subtype2
TCGA-18-3406 TCGA-18-3407 TCGA-18-3410 TCGA-18-3411 TCGA-18-3412 TCGA-18-3414 
       12.16         4.47         4.80        46.52        11.34        13.02 
TCGA-18-3415 TCGA-18-3416 TCGA-18-3417 TCGA-18-3419 TCGA-18-3421 TCGA-21-1078 
       59.51        28.34        24.92         1.61        43.76        15.55 
TCGA-21-1080 TCGA-21-1083 TCGA-21-5784 TCGA-21-5786 TCGA-21-5787 TCGA-22-0940 
      122.43         8.78        29.85        21.57        10.82        19.99 
TCGA-22-0944 TCGA-22-1011 TCGA-22-4594 TCGA-22-4596 TCGA-22-4601 TCGA-22-4604 
        7.33         1.74        48.33         0.56        34.75        13.12 
TCGA-22-4607 TCGA-22-5472 TCGA-22-5474 TCGA-22-5479 TCGA-22-5480 TCGA-22-5481 
       19.30        64.90        14.60        54.28        71.34        79.20 
TCGA-22-5489 TCGA-22-5491 TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 TCGA-33-4586 
       62.86        56.32        97.94        43.10       173.79        14.07 
TCGA-33-4587 TCGA-33-6737 TCGA-33-6738 TCGA-34-2608 TCGA-34-5232 TCGA-34-5234 
       54.44        19.76        26.99        32.84        51.78        32.68 
TCGA-34-5239 TCGA-34-7107 TCGA-37-3783 TCGA-37-3789 TCGA-37-3792 TCGA-37-4130 
       10.82         1.08         3.95         0.43         0.39         8.09 
TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5011 TCGA-39-5019 TCGA-39-5021 
        6.81         0.39         3.39        47.80        44.71        68.58 
TCGA-39-5028 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-39-5036 TCGA-39-5039 
        1.71         1.94        36.39        15.58        35.64        17.88 
TCGA-43-2576 TCGA-43-2581 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-7656 
       18.28        13.12         6.02         5.42         3.78         6.97 
TCGA-43-7657 TCGA-43-7658 TCGA-46-6025 TCGA-52-7622 TCGA-52-7810 TCGA-52-7812 
        1.58        66.51         0.95        17.79        30.31        27.45 
TCGA-56-1622 TCGA-56-5897 TCGA-56-6546 TCGA-56-7579 TCGA-56-7580 TCGA-60-2695 
       28.93         0.10         1.02         1.45         1.32        15.55 
TCGA-60-2696 TCGA-60-2697 TCGA-60-2698 TCGA-60-2708 TCGA-60-2712 TCGA-60-2714 
        3.58        12.23        10.22        68.45         9.01        16.83 
TCGA-60-2716 TCGA-60-2720 TCGA-60-2721 TCGA-60-2723 TCGA-66-2734 TCGA-66-2742 
       38.83         3.16        26.07        22.78        43.10        21.07 
TCGA-66-2744 TCGA-66-2753 TCGA-66-2754 TCGA-66-2755 TCGA-66-2759 TCGA-66-2763 
        0.99         1.02         2.01         0.92        25.02         0.99 
TCGA-66-2765 TCGA-66-2766 TCGA-66-2767 TCGA-66-2768 TCGA-66-2771 TCGA-66-2780 
        2.01         1.02         2.01         2.01        19.00        12.03 
TCGA-66-2781 TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 TCGA-66-2786 TCGA-66-2788 
        3.98        12.00        24.95         1.94        25.97        22.98 
TCGA-66-2789 TCGA-66-2790 TCGA-68-7756 TCGA-68-8251 TCGA-77-6845 TCGA-77-7138 
        4.04        22.98         6.64         3.12        23.28        11.18 
TCGA-77-7141 TCGA-77-7142 TCGA-77-7335 TCGA-77-7337 TCGA-77-7465 TCGA-77-8007 
        0.49        42.25        70.09       106.95        15.75         6.51 
TCGA-77-8128 TCGA-77-8130 TCGA-77-8131 TCGA-77-8133 TCGA-77-8146 TCGA-77-8154 
       37.81        82.92        12.59        53.92        71.77        35.90 
TCGA-85-6560 TCGA-85-6561 TCGA-85-7697 TCGA-85-7698 TCGA-85-7699 TCGA-85-8048 
        0.36         0.79         0.33         1.61         0.03         0.85 
TCGA-85-8276 TCGA-85-8288 TCGA-90-6837 TCGA-90-7767 TCGA-90-7964 TCGA-92-7340 
        0.43         1.78         1.35         2.93         3.29         2.70 
TCGA-92-7341 TCGA-92-8064 TCGA-94-7033 TCGA-94-7943 TCGA-96-7544 TCGA-96-7545 
        3.48         5.26         2.86         4.70        39.88        58.42 
TCGA-96-8170 TCGA-98-7454 TCGA-98-8023 
        6.90         3.78        10.13 

$subtype3
TCGA-21-1075 TCGA-21-1079 TCGA-21-5782 TCGA-21-5783 TCGA-22-1012 TCGA-22-4591 
       70.13        31.69        31.63        88.08        14.10        20.45 
TCGA-22-4593 TCGA-22-4595 TCGA-22-4613 TCGA-22-5478 TCGA-22-5483 TCGA-22-5485 
       35.08        24.13        11.77         0.79        18.84        30.08 
TCGA-22-5492 TCGA-33-4532 TCGA-33-4533 TCGA-33-4582 TCGA-34-2600 TCGA-34-2604 
       16.60        82.98       114.05       103.53        61.61        31.50 
TCGA-34-2609 TCGA-34-5231 TCGA-34-5236 TCGA-34-5241 TCGA-34-5927 TCGA-34-5928 
       31.23        50.24         9.04        14.07        22.95         5.52 
TCGA-34-5929 TCGA-37-4133 TCGA-39-5024 TCGA-39-5027 TCGA-39-5029 TCGA-39-5031 
        4.96         7.82        70.03        60.76        24.33        27.35 
TCGA-39-5037 TCGA-43-2578 TCGA-43-3394 TCGA-43-3920 TCGA-43-5668 TCGA-43-5670 
        0.79        18.08        11.57        18.84         8.48        18.05 
TCGA-43-6143 TCGA-43-8115 TCGA-43-8116 TCGA-46-3768 TCGA-46-6026 TCGA-51-6867 
        7.00         6.64         6.35         9.96         0.59        60.99 
TCGA-52-7809 TCGA-52-7811 TCGA-56-6545 TCGA-56-7223 TCGA-56-7822 TCGA-60-2703 
        5.85         8.75         2.04         0.99         0.03        96.82 
TCGA-60-2704 TCGA-60-2706 TCGA-60-2711 TCGA-60-2713 TCGA-60-2719 TCGA-60-2724 
       37.94        82.19        29.19        47.87        30.61         1.22 
TCGA-60-2725 TCGA-66-2777 TCGA-66-2792 TCGA-66-2793 TCGA-66-2800 TCGA-68-7755 
       23.64         2.01        30.02        10.06        49.05         2.73 
TCGA-68-7757 TCGA-68-8250 TCGA-77-6842 TCGA-77-6844 TCGA-77-7139 TCGA-77-7140 
        6.94         8.02        29.56        75.09        89.95        20.78 
TCGA-77-7463 TCGA-77-8008 TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 TCGA-77-8140 
       46.78        86.76        39.09        17.69       104.09        11.54 
TCGA-77-8143 TCGA-77-8144 TCGA-77-8145 TCGA-77-8148 TCGA-77-8150 TCGA-77-8156 
       26.40        27.39         6.97         9.63        54.41         0.33 
TCGA-85-7696 TCGA-85-7843 TCGA-85-7950 TCGA-85-8049 TCGA-85-8070 TCGA-85-8287 
        0.59         1.15         1.97         1.97         1.41         1.45 
TCGA-90-7766 TCGA-92-8063 TCGA-92-8065 TCGA-94-7557 TCGA-96-8169 TCGA-98-8021 
        1.55         4.01         2.27         0.16         6.18        13.58 
TCGA-98-8022 
        7.33 

subtype1 subtype2 subtype3 
    0.16     0.03     0.03 
subtype1 subtype2 subtype3 
  141.34   173.79   114.05 
subtype1 subtype2 subtype3 
   11.36    12.23    17.69 
[1] "0.2 - 141.3 (11.4)" "0.0 - 173.8 (12.2)" "0.0 - 114.0 (17.7)"
  [1] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[145] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[169] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[217] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[259] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[283] "subtype3" "subtype2"
  [1] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[145] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[169] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[217] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[259] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[283] "subtype3" "subtype2"
  [1] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[145] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[169] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[217] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[259] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[283] "subtype3" "subtype2"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1   9  38
  subtype2  40 120
  subtype3  29  64
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    9   38
  subtype2   40  120
  subtype3   29   64
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        9       40       29
  MALE         38      120       64
D10V4, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     1
  subtype3                                     2
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARCINOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      0
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       0
  subtype2                                       1
  subtype3                                       0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          45
  subtype2                                                         156
  subtype3                                                          91
D10V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1  8 32  3  4
  subtype2 38 99 15  8
  subtype3 26 50 13  4
D10V6, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 28 17  1  1
  subtype2 97 40 18  3
  subtype3 58 28  7  0
D10V7, multiclass
          vv
clus        M0  M1  MX
  subtype1  40   0   3
  subtype2 136   3  20
  subtype3  85   0   7
D10V8, multiclass
          vv
clus        I II III IV
  subtype1 24 13   8  0
  subtype2 79 46  31  3
  subtype3 50 24  19  0
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   2  45
  subtype2   3 157
  subtype3   5  88
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   45
  subtype2    3  157
  subtype3    5   88
     clus
vv    subtype1 subtype2 subtype3
  NO         2        3        5
  YES       45      157       88
D10V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          23
  subtype2                                          79
  subtype3                                          44
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                      8             16
  subtype2                                     43             26
  subtype3                                     16             28
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   0
  subtype2                   8
  subtype3                   3
D10V12, multiclass
D10V13, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  36   2   1   1
  subtype2 125   2   1   9
  subtype3  71   1   1   4
D10V14, multiclass
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
           "KARNOFSKY.PERFORMANCE.SCORE" 
                                      V5 
                     "HISTOLOGICAL.TYPE" 
                                      V6 
                           "PATHOLOGY.T" 
                                      V7 
                           "PATHOLOGY.N" 
                                      V8 
                   "PATHOLOGICSPREAD(M)" 
                                      V9 
                           "TUMOR.STAGE" 
                                     V10 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                     V11 
                 "NUMBERPACKYEARSSMOKED" 
                                     V12 
        "TOBACCOSMOKINGHISTORYINDICATOR" 
                                     V13 
             "YEAROFTOBACCOSMOKINGONSET" 
                                     V14 
             "COMPLETENESS.OF.RESECTION" 
> q(save="no")
