
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LUSC-TP/6162647/LUSC-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/LUSC-TP/6154711/LUSC-TP.merged_data.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=.05", "-cQ=0.25", "-MF=ALL", "-oT=LUSC-TP", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=LUSC-TP"
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/LUSC-TP/6154711/LUSC-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LUSC-TP/6162647/LUSC-TP.mergedcluster.txt"

nPatients in clinical file=408, in cluster file=493, common to both=408
[1]  12 408
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
42 52 32 28 
 1  2  3  4 
42 52 32 28 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
22 56 23 53 
 1  2  3  4 
22 56 23 53 
[1] "CN_CNMF"
[1] 3
  1   2   3 
162 134 110 
  1   2   3 
162 134 110 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
112  87  75 
  1   2   3 
112  87  75 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
60 73 62 
 1  2  3 
60 73 62 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
58 48 49 40 
 1  2  3  4 
58 48 49 40 
[1] "MRNASEQ_CNMF"
[1] 3
  1   2   3   4 
 96 118 117  67 
  1   2   3   4 
 96 118 117  67 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 81 116 201 
  1   2   3 
 81 116 201 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3   4 
138  94  99  51 
  1   2   3   4 
138  94  99  51 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 62 119 201 
  1   2   3 
 62 119 201 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3 
85 84 77 
 1  2  3 
85 84 77 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2 
141 105 
  1   2 
141 105 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDESEASE"                  
 [6] "NEOPLASM.DISEASESTAGE"                 
 [7] "PATHOLOGY.T.STAGE"                     
 [8] "PATHOLOGY.N.STAGE"                     
 [9] "PATHOLOGY.M.STAGE"                     
[10] "DCCUPLOADDATE"                         
[11] "GENDER"                                
[12] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[13] "DAYSTOLASTKNOWNALIVE"                  
[14] "RADIATIONTHERAPY"                      
[15] "KARNOFSKYPERFORMANCESCORE"             
[16] "HISTOLOGICALTYPE"                      
[17] "RADIATIONS.RADIATION.REGIMENINDICATION"
[18] "NUMBERPACKYEARSSMOKED"                 
[19] "YEAROFTOBACCOSMOKINGONSET"             
[20] "COMPLETENESS.OF.RESECTION"             
[21] "GLEASON_SCORE"                         
[22] "PSA_VALUE"                             
[23] "DAYS_TO_PSA"                           
[24] "BATCHNUMBER"                           

Input Data has 24 rows and 408 columns.

[1] "Batch" "24"   
[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 
        3636         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-21-A5DI 
         962           NA         1268         1032          329          979 
TCGA-22-0940 TCGA-22-0944 TCGA-22-1000 TCGA-22-1002 TCGA-22-1005 TCGA-22-1011 
         608          223           NA          131         1953           53 
TCGA-22-1012 TCGA-22-1016 TCGA-22-1017 TCGA-22-4591 TCGA-22-4593 TCGA-22-4594 
         429          822           NA          622         1067         1470 
TCGA-22-4595 TCGA-22-4596 TCGA-22-4599 TCGA-22-4601 TCGA-22-4604 TCGA-22-4605 
         734           17         1161         1057          399           NA 
TCGA-22-4607 TCGA-22-4609 TCGA-22-4613 TCGA-22-5471 TCGA-22-5472 TCGA-22-5473 
         587           NA          358          965         1974         1932 
TCGA-22-5474 TCGA-22-5477 TCGA-22-5478 TCGA-22-5479 TCGA-22-5480 TCGA-22-5481 
         444         1345           24         1651         2170           NA 
TCGA-22-5482 TCGA-22-5483 TCGA-22-5485 TCGA-22-5489 TCGA-22-5491 TCGA-22-5492 
         357          573          915         1912         1713          505 
TCGA-22-A5C4 TCGA-33-4532 TCGA-33-4533 TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 
          29         2524         3469         2979         1311         5286 
TCGA-33-4582 TCGA-33-4583 TCGA-33-4586 TCGA-33-4587 TCGA-33-4589 TCGA-33-6737 
        3149         4299          428           NA          334           NA 
TCGA-33-6738 TCGA-34-2596 TCGA-34-2600 TCGA-34-2604 TCGA-34-2605 TCGA-34-2608 
         821           80         1874          958          881          999 
TCGA-34-2609 TCGA-34-5231 TCGA-34-5232 TCGA-34-5234 TCGA-34-5236 TCGA-34-5239 
         950         1528         2062         1715           NA          707 
TCGA-34-5240 TCGA-34-5241 TCGA-34-5927 TCGA-34-5928 TCGA-34-5929 TCGA-34-7107 
         365          428          941          551           NA           NA 
TCGA-37-3783 TCGA-37-3789 TCGA-37-3792 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 
         120           13           12          199          246          227 
TCGA-37-4133 TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5011 TCGA-39-5016 
         238          207           12          103         1454         2253 
TCGA-39-5019 TCGA-39-5021 TCGA-39-5022 TCGA-39-5024 TCGA-39-5027 TCGA-39-5028 
        1360         2086           NA         2130         1848           52 
TCGA-39-5029 TCGA-39-5030 TCGA-39-5031 TCGA-39-5034 TCGA-39-5035 TCGA-39-5036 
         740           59          832         1107          474         1084 
TCGA-39-5037 TCGA-39-5039 TCGA-39-5040 TCGA-43-2576 TCGA-43-2578 TCGA-43-2581 
        1086          544           NA         1223          684         1176 
TCGA-43-3394 TCGA-43-3920 TCGA-43-5668 TCGA-43-5670 TCGA-43-6143 TCGA-43-6647 
         822         1006          349          549          376          757 
TCGA-43-6770 TCGA-43-6771 TCGA-43-6773 TCGA-43-7656 TCGA-43-7657 TCGA-43-7658 
         310           NA           NA          212           48         2023 
TCGA-43-8115 TCGA-43-8116 TCGA-43-8118 TCGA-43-A474 TCGA-43-A475 TCGA-43-A56V 
         202          193           NA          353          296          154 
TCGA-46-3765 TCGA-46-3766 TCGA-46-3767 TCGA-46-3768 TCGA-46-3769 TCGA-46-6025 
          NA           NA           NA           NA           NA          324 
TCGA-46-6026 TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-51-6867 TCGA-52-7622 
         422           12           12          911           NA          541 
TCGA-52-7809 TCGA-52-7810 TCGA-52-7811 TCGA-52-7812 TCGA-56-1622 TCGA-56-5897 
          NA          922           NA           NA          880            3 
TCGA-56-5898 TCGA-56-6545 TCGA-56-6546 TCGA-56-7221 TCGA-56-7222 TCGA-56-7223 
         555           62           31           30           13           30 
TCGA-56-7579 TCGA-56-7580 TCGA-56-7582 TCGA-56-7730 TCGA-56-7731 TCGA-56-7822 
          44           40           26            6           NA            1 
TCGA-56-8503 TCGA-56-8504 TCGA-56-8622 TCGA-56-8624 TCGA-56-8625 TCGA-56-8626 
          41          177           54           36           63           17 
TCGA-56-8628 TCGA-56-8629 TCGA-56-A49D TCGA-56-A4BW TCGA-56-A4BX TCGA-56-A4BY 
          16           34           30           NA           46           30 
TCGA-56-A4ZJ TCGA-56-A4ZK TCGA-56-A5DR TCGA-56-A5DS TCGA-58-8386 TCGA-58-8387 
          31            4           NA            8           NA           NA 
TCGA-58-8388 TCGA-58-8390 TCGA-58-8391 TCGA-58-8392 TCGA-58-8393 TCGA-58-A46J 
         378          911         2167           NA         1058         1973 
TCGA-58-A46K TCGA-58-A46L TCGA-58-A46M TCGA-58-A46N TCGA-60-2695 TCGA-60-2696 
          NA         1113          707          539          641          109 
TCGA-60-2697 TCGA-60-2698 TCGA-60-2703 TCGA-60-2704 TCGA-60-2706 TCGA-60-2707 
          NA          311           NA           NA         2820          660 
TCGA-60-2708 TCGA-60-2709 TCGA-60-2710 TCGA-60-2711 TCGA-60-2712 TCGA-60-2713 
        2446         1505         2023         1259          274         1731 
TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 
        1531         1075         1475         1296           96          982 
TCGA-60-2722 TCGA-60-2723 TCGA-60-2724 TCGA-60-2725 TCGA-60-2726 TCGA-63-5128 
         908         1092          717          815          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 
          NA         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           NA 
TCGA-66-2770 TCGA-66-2771 TCGA-66-2773 TCGA-66-2777 TCGA-66-2778 TCGA-66-2780 
         700          578           NA           61          578           NA 
TCGA-66-2781 TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 TCGA-66-2786 TCGA-66-2787 
         121           NA          759           59          790         1217 
TCGA-66-2788 TCGA-66-2789 TCGA-66-2790 TCGA-66-2791 TCGA-66-2792 TCGA-66-2793 
         699           NA          699           NA          913           NA 
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-77-8153 
         833           NA         2183          293           NA         1683 
TCGA-77-8154 TCGA-77-8156 TCGA-77-A5FZ TCGA-77-A5G3 TCGA-77-A5GB TCGA-77-A5GH 
        1092           10           NA         3576           NA          713 
TCGA-79-5596 TCGA-85-6175 TCGA-85-6560 TCGA-85-6561 TCGA-85-6798 TCGA-85-7696 
          NA           NA           11           24           34           18 
TCGA-85-7697 TCGA-85-7698 TCGA-85-7699 TCGA-85-7710 TCGA-85-7843 TCGA-85-7844 
          10           49            1           NA           35           38 
TCGA-85-7950 TCGA-85-8048 TCGA-85-8049 TCGA-85-8052 TCGA-85-8070 TCGA-85-8071 
          60           26           60           16          510          428 
TCGA-85-8072 TCGA-85-8276 TCGA-85-8277 TCGA-85-8287 TCGA-85-8288 TCGA-85-8350 
          36           13           11           44           54           60 
TCGA-85-8351 TCGA-85-8352 TCGA-85-8353 TCGA-85-8354 TCGA-85-8355 TCGA-85-8479 
          55           67           54           61           20           22 
TCGA-85-8481 TCGA-85-8580 TCGA-85-8582 TCGA-85-8584 TCGA-85-8664 TCGA-85-8666 
          20          444          423           NA            3          474 
TCGA-85-A4CL TCGA-85-A4CN TCGA-85-A4JB TCGA-85-A4JC TCGA-85-A4PA TCGA-85-A4QQ 
          14           NA           NA           NA           NA           NA 
TCGA-85-A4QR TCGA-85-A50M TCGA-85-A50Z TCGA-85-A510 TCGA-85-A511 TCGA-85-A512 
          25           19           NA           NA           NA           NA 
TCGA-85-A513 TCGA-85-A53L TCGA-90-6837 TCGA-90-7766 TCGA-90-7767 TCGA-90-7769 
          24           13          757          289           89          358 
TCGA-90-7964 TCGA-90-A4ED TCGA-90-A4EE TCGA-92-7340 TCGA-92-7341 TCGA-92-8063 
         428          244          331           82          106          122 
TCGA-92-8064 TCGA-92-8065 TCGA-94-7033 TCGA-94-7557 TCGA-94-7943 TCGA-96-7544 
         160           69           87           NA          356         1213 
TCGA-96-7545 TCGA-96-8169 TCGA-96-8170 TCGA-96-A4JK TCGA-96-A4JL TCGA-98-7454 
        1343          188          210          273          183          256 
TCGA-98-8020 TCGA-98-8021 TCGA-98-8022 TCGA-98-8023 TCGA-J1-A4AH TCGA-L3-A4E7 
          NA          413          223          308          222           35 
TCGA-L3-A524 TCGA-LA-A446 TCGA-MF-A522 TCGA-NC-A5HE TCGA-NC-A5HG TCGA-NC-A5HI 
         449           36           92         1722         1547         1135 
Variable 1:'AGE':	nDistinctValues=45,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=137,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=257,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'NEOPLASM.DISEASESTAGE':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.N.STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY.M.STAGE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=19,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=131,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 14:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 16:'HISTOLOGICAL.TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 18:'NUMBERPACKYEARSSMOKED':	nDistinctValues=94,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 19:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=54,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'GLEASON_SCORE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 22:'PSA_VALUE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 23:'DAYS_TO_PSA':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 24:'BATCH.NUMBER':	nDistinctValues=29,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "NEOPLASM.DISEASESTAGE"                 
 [3] "PATHOLOGY.T.STAGE"                     
 [4] "PATHOLOGY.N.STAGE"                     
 [5] "PATHOLOGY.M.STAGE"                     
 [6] "GENDER"                                
 [7] "KARNOFSKY.PERFORMANCE.SCORE"           
 [8] "HISTOLOGICAL.TYPE"                     
 [9] "RADIATIONS.RADIATION.REGIMENINDICATION"
[10] "NUMBERPACKYEARSSMOKED"                 
[11] "YEAROFTOBACCOSMOKINGONSET"             
[12] "COMPLETENESS.OF.RESECTION"             
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 408 columns, 1 survival variables, and 12 non-survival variables.
AGE, nv=45, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=9, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
 95 250  44  19 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
 95 250  44  19 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T1  T2  T3  T4 
 95 250  44  19 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
 95 250  44  19 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
255 109  34   5 
[1] "table(vv)"
vv
 N0  N1  N2  N3 
255 109  34   5 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2  N3 
255 109  34   5 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 N0  N1  N2  N3 
255 109  34   5 
PATHOLOGY.M.STAGE, nv=3, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=8, binary=FALSE, numeric=TRUE
HISTOLOGICAL.TYPE, nv=4, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=94, binary=FALSE, numeric=TRUE
YEAROFTOBACCOSMOKINGONSET, nv=54, 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 24 17
  subtype2 31 19
  subtype3 13 17
  subtype4 16 11
subtype1 subtype2 subtype3 subtype4 
      41       50       30       27 
subtype1 subtype2 subtype3 subtype4 
      17       19       17       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       119.54        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        33.07        28.93        21.70 
TCGA-60-2708 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 TCGA-60-2724 TCGA-66-2734 
       80.42        42.61         3.16        32.28        23.57        43.10 
TCGA-66-2742 TCGA-66-2763 TCGA-66-2765 TCGA-66-2768 TCGA-66-2771 TCGA-66-2778 
       21.07         0.99         2.01         2.01        19.00        19.00 
TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 TCGA-66-2788 TCGA-66-2789 
       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         7.63        97.94 
TCGA-34-2596 TCGA-34-2605 TCGA-34-5240 TCGA-39-5016 TCGA-39-5021 TCGA-39-5036 
        2.63        28.96        12.00        74.07        68.58        35.64 
TCGA-39-5037 TCGA-43-3394 TCGA-46-3768 TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 
       35.70        27.02         9.96         0.39         0.39        29.95 
TCGA-60-2710 TCGA-60-2711 TCGA-60-2713 TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 
       66.51        41.39        56.91        29.85        35.90        16.96 
TCGA-66-2737 TCGA-66-2758 TCGA-66-2759 TCGA-66-2766 TCGA-66-2770 TCGA-66-2773 
        2.01        20.98        25.02         1.02        23.01         3.02 
TCGA-66-2777 TCGA-66-2783 TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 TCGA-66-2794 
        2.01        24.95        40.01         5.03        30.02        54.08 
TCGA-66-2795 TCGA-66-2800 
        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-33-4566 TCGA-34-2604 TCGA-34-2608 
       48.82        48.33         0.56       173.79        31.50        32.84 
TCGA-37-3792 TCGA-39-5030 TCGA-43-2576 TCGA-43-2581 TCGA-60-2696 TCGA-60-2698 
        0.39         1.94        40.21        38.66         3.58        10.22 
TCGA-60-2706 TCGA-60-2712 TCGA-60-2714 TCGA-60-2715 TCGA-60-2725 TCGA-66-2744 
       92.71         9.01        50.33        35.34        26.79         0.99 
TCGA-66-2753 TCGA-66-2755 TCGA-66-2767 TCGA-66-2769 TCGA-66-2785 TCGA-66-2786 
        1.02         0.92         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-33-4582 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 
       11.77       114.05       103.53         6.54         8.09         7.46 
TCGA-37-4133 TCGA-37-4135 TCGA-37-4141 TCGA-39-5011 TCGA-39-5034 TCGA-39-5035 
        7.82         6.81         0.39        47.80        36.39        15.58 
TCGA-43-2578 TCGA-60-2695 TCGA-60-2716 TCGA-60-2726 TCGA-66-2754 TCGA-66-2756 
       22.49        21.07        48.49        11.77         2.01         0.99 
TCGA-66-2757 TCGA-66-2790 TCGA-66-2793 
        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   173.79   114.05 
subtype1 subtype2 subtype3 subtype4 
  19.300   29.405   22.980   11.770 
[1] "0.4 - 122.4 (19.3)" "0.4 - 99.2 (29.4)"  "0.4 - 173.8 (23.0)"
[4] "0.4 - 114.0 (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" "subtype3" "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" "subtype2" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype2"
[121] "subtype2" "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" "subtype3" "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" "subtype2" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype2"
[121] "subtype2" "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" "subtype3" "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" "subtype2" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype2"
[121] "subtype2" "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
          vv
clus       STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB STAGE IV
  subtype1        2       21         0         9          6          2        2
  subtype2        2       24         4         9          6          7        0
  subtype3        8       11         2         4          4          2        0
  subtype4        8        5         1         5          3          4        2
D1V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1  5 30  6  1
  subtype2  4 41  1  6
  subtype3 11 18  2  1
  subtype4 10 11  3  4
D1V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 26 11  3  2
  subtype2 28 17  5  2
  subtype3 22  6  3  1
  subtype4 20  6  2  0
D1V5, multiclass
          vv
clus       M0 M1
  subtype1 38  2
  subtype2 50  0
  subtype3 32  0
  subtype4 26  2
D1V6, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0       38       50       32       26
  M1        2        0        0        2
D1V7, binary
          cls
clus        0  1
  subtype1  9 33
  subtype2 13 39
  subtype3 11 21
  subtype4 11 17
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    9   33
  subtype2   13   39
  subtype3   11   21
  subtype4   11   17
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        9       13       11       11
  MALE         33       39       21       17
D1V8, 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                                                          42
  subtype2                                                          49
  subtype3                                                          31
  subtype4                                                          26
D1V9, multiclass
D1V10, binary
          cls
clus        0  1
  subtype1  1 41
  subtype2  0 52
  subtype3  1 31
  subtype4  0 28
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   41
  subtype2    0   52
  subtype3    1   31
  subtype4    0   28
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        1        0
  YES       41       52       31       28
D1V11, continuous
D1V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 38  0  1  1
  subtype2 47  1  1  1
  subtype3 27  1  0  3
  subtype4 27  1  0  0
D1V13, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 15  7
  subtype2 33 21
  subtype3 12 10
  subtype4 24 26
subtype1 subtype2 subtype3 subtype4 
      22       54       22       50 
subtype1 subtype2 subtype3 subtype4 
       7       21       10       26 
$subtype1
TCGA-21-1083 TCGA-22-1005 TCGA-22-1017 TCGA-22-4594 TCGA-22-4596 TCGA-37-4129 
        8.78        64.21        48.82        48.33         0.56         6.54 
TCGA-37-4130 TCGA-37-4132 TCGA-37-4135 TCGA-37-4141 TCGA-39-5011 TCGA-39-5034 
        8.09         7.46         6.81         0.39        47.80        36.39 
TCGA-39-5035 TCGA-43-2576 TCGA-43-2578 TCGA-43-2581 TCGA-60-2695 TCGA-60-2706 
       15.58        40.21        22.49        38.66        21.07        92.71 
TCGA-60-2714 TCGA-66-2754 TCGA-66-2756 TCGA-66-2757 
       50.33         2.01         0.99         0.99 

$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-21-1076 
        6.15         2.79        46.88        99.16        70.13        60.89 
TCGA-21-1077 TCGA-22-0944 TCGA-22-1012 TCGA-22-4599 TCGA-22-4601 TCGA-22-4604 
       34.78         7.33        14.10        38.17        34.75        13.12 
TCGA-33-4532 TCGA-33-4538 TCGA-34-2596 TCGA-34-2605 TCGA-34-5240 TCGA-37-4133 
        7.63        97.94         2.63        28.96        12.00         7.82 
TCGA-39-5016 TCGA-39-5021 TCGA-39-5036 TCGA-39-5037 TCGA-43-3394 TCGA-46-3768 
       74.07        68.58        35.64        35.70        27.02         9.96 
TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-60-2710 TCGA-60-2711 TCGA-60-2713 
        0.39         0.39        29.95        66.51        41.39        56.91 
TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 TCGA-66-2737 TCGA-66-2758 TCGA-66-2759 
       29.85        35.90        16.96         2.01        20.98        25.02 
TCGA-66-2766 TCGA-66-2767 TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 TCGA-66-2783 
        1.02         2.01        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-18-3414 TCGA-18-3419 TCGA-18-3421 TCGA-21-1078 TCGA-21-1080 TCGA-21-1082 
       13.02         1.61        43.76        15.55       122.43       119.80 
TCGA-22-1011 TCGA-22-4591 TCGA-22-4613 TCGA-33-4582 TCGA-34-2600 TCGA-56-1622 
        1.74        20.45        11.77       103.53        61.61        28.93 
TCGA-60-2716 TCGA-60-2719 TCGA-60-2721 TCGA-60-2726 TCGA-66-2742 TCGA-66-2763 
       48.49        42.61        32.28        11.77        21.07         0.99 
TCGA-66-2771 TCGA-66-2778 TCGA-66-2781 TCGA-66-2793 
       19.00        19.00         3.98        10.06 

$subtype4
TCGA-18-3406 TCGA-18-3409 TCGA-18-3410 TCGA-18-3417 TCGA-21-1070 TCGA-21-1079 
       12.16        79.46         4.80        24.92       119.54        31.69 
TCGA-21-1081 TCGA-22-0940 TCGA-22-1000 TCGA-22-1002 TCGA-22-1016 TCGA-22-4595 
        9.30        19.99        14.93         4.31        27.02        24.13 
TCGA-22-4607 TCGA-33-4533 TCGA-33-4547 TCGA-33-4566 TCGA-33-4589 TCGA-34-2604 
       19.30       114.05        43.10       173.79        10.98        31.50 
TCGA-34-2608 TCGA-34-2609 TCGA-34-5241 TCGA-37-3783 TCGA-37-3789 TCGA-37-3792 
       32.84        31.23        14.07         3.95         0.43         0.39 
TCGA-39-5029 TCGA-39-5030 TCGA-43-3920 TCGA-60-2696 TCGA-60-2698 TCGA-60-2707 
       24.33         1.94        33.07         3.58        10.22        21.70 
TCGA-60-2708 TCGA-60-2712 TCGA-60-2715 TCGA-60-2720 TCGA-60-2724 TCGA-60-2725 
       80.42         9.01        35.34         3.16        23.57        26.79 
TCGA-66-2734 TCGA-66-2744 TCGA-66-2753 TCGA-66-2755 TCGA-66-2765 TCGA-66-2768 
       43.10         0.99         1.02         0.92         2.01         2.01 
TCGA-66-2769 TCGA-66-2780 TCGA-66-2782 TCGA-66-2785 TCGA-66-2786 TCGA-66-2788 
        7.07        12.03        12.00         1.94        25.97        22.98 
TCGA-66-2789 TCGA-66-2790 
        4.04        22.98 

subtype1 subtype2 subtype3 subtype4 
    0.39     0.39     0.99     0.39 
subtype1 subtype2 subtype3 subtype4 
   92.71    99.16   122.43   173.79 
subtype1 subtype2 subtype3 subtype4 
  18.325   27.680   19.725   17.115 
[1] "0.4 - 92.7 (18.3)"  "0.4 - 99.2 (27.7)"  "1.0 - 122.4 (19.7)"
[4] "0.4 - 173.8 (17.1)"
  [1] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype3" "subtype4" "subtype3"
 [25] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype4"
 [31] "subtype4" "subtype1" "subtype3" "subtype2" "subtype4" "subtype1"
 [37] "subtype3" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
 [49] "subtype4" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
 [55] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [73] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype4"
 [91] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
 [97] "subtype4" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[103] "subtype4" "subtype3" "subtype2" "subtype2" "subtype4" "subtype4"
[109] "subtype3" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[115] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[121] "subtype2" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
[139] "subtype2" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2"
  [1] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype3" "subtype4" "subtype3"
 [25] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype4"
 [31] "subtype4" "subtype1" "subtype3" "subtype2" "subtype4" "subtype1"
 [37] "subtype3" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
 [49] "subtype4" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
 [55] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [73] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype4"
 [91] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
 [97] "subtype4" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[103] "subtype4" "subtype3" "subtype2" "subtype2" "subtype4" "subtype4"
[109] "subtype3" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[115] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[121] "subtype2" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
[139] "subtype2" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2"
  [1] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype3" "subtype4" "subtype3"
 [25] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype4"
 [31] "subtype4" "subtype1" "subtype3" "subtype2" "subtype4" "subtype1"
 [37] "subtype3" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
 [49] "subtype4" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
 [55] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [73] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype4"
 [91] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
 [97] "subtype4" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[103] "subtype4" "subtype3" "subtype2" "subtype2" "subtype4" "subtype4"
[109] "subtype3" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[115] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[121] "subtype2" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
[139] "subtype2" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2"
D2V2, continuous
          vv
clus       STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB STAGE IV
  subtype1        9        4         0         2          4          2        1
  subtype2        2       25         4        10          6          9        0
  subtype3        3       10         1         4          1          2        2
  subtype4        6       22         2        11          8          2        1
D2V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 12  6  3  1
  subtype2  4 44  1  7
  subtype3  4 16  1  2
  subtype4 10 34  7  2
D2V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 17  2  3  0
  subtype2 30 18  5  3
  subtype3 13  8  1  1
  subtype4 36 12  4  1
D2V5, multiclass
          vv
clus       M0 M1
  subtype1 21  1
  subtype2 54  0
  subtype3 21  2
  subtype4 50  1
D2V6, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0       21       54       21       50
  M1        1        0        2        1
D2V7, binary
          cls
clus        0  1
  subtype1 14  8
  subtype2 13 43
  subtype3  5 18
  subtype4 12 41
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   14    8
  subtype2   13   43
  subtype3    5   18
  subtype4   12   41
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       14       13        5       12
  MALE          8       43       18       41
D2V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     1
  subtype2                                     3
  subtype3                                     0
  subtype4                                     1
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      0
  subtype2                                      0
  subtype3                                      1
  subtype4                                      0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          21
  subtype2                                                          53
  subtype3                                                          22
  subtype4                                                          52
D2V9, multiclass
D2V10, binary
          cls
clus        0  1
  subtype1  1 21
  subtype2  0 56
  subtype3  0 23
  subtype4  1 52
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   21
  subtype2    0   56
  subtype3    0   23
  subtype4    1   52
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        0        1
  YES       21       56       23       52
D2V11, continuous
D2V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 21  0  0  0
  subtype2 51  1  1  1
  subtype3 22  0  1  0
  subtype4 45  2  0  4
D2V13, multiclass

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 87 62
  subtype2 85 43
  subtype3 67 33
subtype1 subtype2 subtype3 
     149      128      100 
subtype1 subtype2 subtype3 
      62       43       33 
$subtype1
TCGA-18-3406 TCGA-18-3407 TCGA-18-3409 TCGA-18-4086 TCGA-18-4721 TCGA-18-5595 
       12.16         4.47        79.46         2.79        90.51        27.16 
TCGA-21-1070 TCGA-21-1076 TCGA-21-1078 TCGA-21-1079 TCGA-21-5784 TCGA-22-0940 
      119.54        60.89        15.55        31.69        41.69        19.99 
TCGA-22-1000 TCGA-22-1002 TCGA-22-1005 TCGA-22-1011 TCGA-22-1016 TCGA-22-1017 
       14.93         4.31        64.21         1.74        27.02        48.82 
TCGA-22-4594 TCGA-22-4596 TCGA-22-4605 TCGA-22-4607 TCGA-22-4609 TCGA-22-5472 
       48.33         0.56        32.02        19.30         9.53        64.90 
TCGA-22-5479 TCGA-22-5480 TCGA-22-5481 TCGA-33-4566 TCGA-33-4583 TCGA-33-4587 
       54.28        71.34        79.20       173.79       141.34        54.44 
TCGA-33-4589 TCGA-33-6737 TCGA-34-2604 TCGA-34-2608 TCGA-34-5232 TCGA-34-5234 
       10.98        19.76        31.50        32.84        67.79        56.38 
TCGA-34-5236 TCGA-34-5239 TCGA-34-5241 TCGA-37-3783 TCGA-37-3792 TCGA-37-4129 
        9.04        23.24        14.07         3.95         0.39         6.54 
TCGA-37-4132 TCGA-39-5011 TCGA-39-5021 TCGA-39-5022 TCGA-39-5024 TCGA-39-5028 
        7.46        47.80        68.58        55.17        70.03         1.71 
TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-39-5039 TCGA-39-5040 TCGA-43-2576 
        1.94        36.39        15.58        17.88        17.06        40.21 
TCGA-43-2581 TCGA-43-5668 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-8115 
       38.66        11.47        24.89         5.42         3.78         6.64 
TCGA-43-8118 TCGA-43-A475 TCGA-52-7622 TCGA-52-7811 TCGA-52-7812 TCGA-56-5897 
        2.93         9.73        17.79         8.75        27.45         0.10 
TCGA-56-5898 TCGA-56-6546 TCGA-56-7221 TCGA-56-7822 TCGA-56-8503 TCGA-56-8504 
       18.25         1.02         0.99         0.03         1.35         5.82 
TCGA-56-8622 TCGA-56-8624 TCGA-56-8625 TCGA-56-8626 TCGA-56-A4ZJ TCGA-56-A5DS 
        1.78         1.18         2.07         0.56         1.02         0.26 
TCGA-58-8387 TCGA-58-8388 TCGA-58-8393 TCGA-58-A46J TCGA-60-2696 TCGA-60-2697 
       13.25        12.43        34.78        64.87         3.58        12.23 
TCGA-60-2704 TCGA-60-2707 TCGA-60-2709 TCGA-60-2712 TCGA-60-2714 TCGA-60-2715 
       37.94        21.70        49.48         9.01        50.33        35.34 
TCGA-60-2716 TCGA-60-2720 TCGA-60-2721 TCGA-60-2724 TCGA-60-2725 TCGA-66-2734 
       48.49         3.16        32.28        23.57        26.79        43.10 
TCGA-66-2737 TCGA-66-2755 TCGA-66-2765 TCGA-66-2771 TCGA-66-2773 TCGA-66-2778 
        2.01         0.92         2.01        19.00         3.02        19.00 
TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 TCGA-66-2788 TCGA-68-7756 TCGA-68-7757 
       12.00        24.95         1.94        22.98         6.64         6.94 
TCGA-68-8251 TCGA-77-7138 TCGA-77-7335 TCGA-77-8007 TCGA-77-8008 TCGA-77-8130 
        3.12        11.18        70.09         6.51        86.76        82.92 
TCGA-77-8131 TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 TCGA-77-8144 TCGA-77-8145 
       12.59        39.09        17.69       104.09        27.39         6.97 
TCGA-77-A5FZ TCGA-77-A5GB TCGA-77-A5GH TCGA-85-6561 TCGA-85-7697 TCGA-85-7844 
      126.18        30.81        23.44         0.79         0.33         1.25 
TCGA-85-7950 TCGA-85-8048 TCGA-85-8049 TCGA-85-8353 TCGA-85-8355 TCGA-85-8481 
        1.97         0.85         1.97         1.78         0.66         0.66 
TCGA-85-8580 TCGA-85-8582 TCGA-85-8666 TCGA-85-A50M TCGA-85-A513 TCGA-90-6837 
       14.60        13.91        15.58         0.62         0.79        24.89 
TCGA-90-A4ED TCGA-92-7340 TCGA-92-8065 TCGA-96-8169 TCGA-96-8170 TCGA-96-A4JL 
        8.02         2.70         2.27         6.18         6.90         6.02 
TCGA-98-7454 TCGA-98-8022 TCGA-98-8023 TCGA-L3-A4E7 TCGA-NC-A5HE 
        8.42         7.33        10.13         1.15        56.61 

$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-18-5592 TCGA-21-1071 TCGA-21-1072 TCGA-21-1075 TCGA-21-1077 
        6.15         3.02        46.88        99.16        70.13        34.78 
TCGA-21-1083 TCGA-22-0944 TCGA-22-4595 TCGA-22-4599 TCGA-22-4604 TCGA-22-4613 
        8.78         7.33        24.13        38.17        13.12        11.77 
TCGA-22-5471 TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 TCGA-22-5483 TCGA-22-5485 
       31.73        63.52        14.60        44.22        18.84        30.08 
TCGA-22-5489 TCGA-22-5491 TCGA-33-4532 TCGA-33-4533 TCGA-33-4538 TCGA-33-4582 
       62.86        56.32         7.63       114.05        97.94       103.53 
TCGA-33-4586 TCGA-34-2596 TCGA-34-2600 TCGA-34-2605 TCGA-34-5231 TCGA-34-5240 
       14.07         2.63        61.61        28.96        50.24        12.00 
TCGA-34-5927 TCGA-34-7107 TCGA-37-3789 TCGA-37-4133 TCGA-37-5819 TCGA-39-5016 
       30.94         1.08         0.43         7.82         3.39        74.07 
TCGA-39-5019 TCGA-39-5027 TCGA-39-5036 TCGA-39-5037 TCGA-43-3394 TCGA-43-6143 
       44.71        60.76        35.64        35.70        27.02        12.36 
TCGA-43-6770 TCGA-43-7657 TCGA-43-7658 TCGA-46-3768 TCGA-46-6025 TCGA-46-6026 
       10.19         1.58        66.51         9.96        10.65        13.87 
TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-52-7809 TCGA-56-7223 TCGA-56-7582 
        0.39         0.39        29.95         5.42         0.99         0.85 
TCGA-56-7730 TCGA-56-A4BX TCGA-56-A4BY TCGA-56-A4ZK TCGA-58-8391 TCGA-58-8392 
        0.20         1.51         0.99         0.13        71.24        16.47 
TCGA-58-A46K TCGA-58-A46L TCGA-58-A46M TCGA-58-A46N TCGA-60-2698 TCGA-60-2711 
       34.36        36.59        23.24        17.72        10.22        41.39 
TCGA-60-2713 TCGA-60-2722 TCGA-66-2742 TCGA-66-2758 TCGA-66-2766 TCGA-66-2767 
       56.91        29.85        21.07        20.98         1.02         2.01 
TCGA-66-2770 TCGA-66-2777 TCGA-66-2781 TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 
       23.01         2.01         3.98        40.01         5.03        30.02 
TCGA-66-2793 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-77-6843 
       10.06        54.08         4.01        49.05         2.73        73.08 
TCGA-77-6845 TCGA-77-7139 TCGA-77-7140 TCGA-77-7141 TCGA-77-7142 TCGA-77-7338 
       23.28        89.95        20.78         0.49        42.25         0.16 
TCGA-77-8009 TCGA-77-8128 TCGA-77-8133 TCGA-77-8148 TCGA-77-8150 TCGA-77-8153 
       53.95        37.81        53.92         9.63        54.41        55.33 
TCGA-77-8156 TCGA-77-A5G3 TCGA-85-6798 TCGA-85-7696 TCGA-85-7698 TCGA-85-8052 
        0.33       117.57         1.12         0.59         1.61         0.53 
TCGA-85-8070 TCGA-85-8072 TCGA-85-8277 TCGA-85-8354 TCGA-85-8479 TCGA-85-A4CL 
       16.77         1.18         0.36         2.01         0.72         0.46 
TCGA-85-A53L TCGA-90-7769 TCGA-90-A4EE TCGA-92-7341 TCGA-92-8063 TCGA-92-8064 
        0.43        11.77        10.88         3.48         4.01         5.26 
TCGA-94-7943 TCGA-96-7545 TCGA-96-A4JK TCGA-98-8021 TCGA-J1-A4AH TCGA-L3-A524 
       11.70        44.15         8.98        13.58         7.30        14.76 
TCGA-LA-A446 TCGA-MF-A522 
        1.18         3.02 

$subtype3
TCGA-18-3410 TCGA-18-3414 TCGA-18-3419 TCGA-18-3421 TCGA-21-1080 TCGA-21-1081 
        4.80        13.02         1.61        43.76       122.43         9.30 
TCGA-21-1082 TCGA-21-5782 TCGA-21-5783 TCGA-21-5786 TCGA-21-5787 TCGA-21-A5DI 
      119.80        31.63        88.08        33.93        10.82        32.19 
TCGA-22-1012 TCGA-22-4591 TCGA-22-4593 TCGA-22-4601 TCGA-22-5478 TCGA-22-5482 
       14.10        20.45        35.08        34.75         0.79        11.74 
TCGA-22-5492 TCGA-22-A5C4 TCGA-33-4547 TCGA-33-6738 TCGA-34-2609 TCGA-34-5928 
       16.60         0.95        43.10        26.99        31.23        18.12 
TCGA-34-5929 TCGA-37-4130 TCGA-37-4135 TCGA-37-4141 TCGA-39-5029 TCGA-39-5031 
        4.96         8.09         6.81         0.39        24.33        27.35 
TCGA-43-2578 TCGA-43-3920 TCGA-43-5670 TCGA-43-7656 TCGA-43-8116 TCGA-43-A474 
       22.49        33.07        18.05         6.97         6.35        11.61 
TCGA-43-A56V TCGA-52-7810 TCGA-56-1622 TCGA-56-6545 TCGA-56-7222 TCGA-56-7579 
        5.06        30.31        28.93         2.04         0.43         1.45 
TCGA-56-7580 TCGA-56-8628 TCGA-56-8629 TCGA-56-A49D TCGA-58-8386 TCGA-58-8390 
        1.32         0.53         1.12         0.99         0.03        29.95 
TCGA-60-2695 TCGA-60-2703 TCGA-60-2706 TCGA-60-2708 TCGA-60-2710 TCGA-60-2719 
       21.07        96.82        92.71        80.42        66.51        42.61 
TCGA-60-2723 TCGA-60-2726 TCGA-66-2727 TCGA-66-2744 TCGA-66-2753 TCGA-66-2754 
       35.90        11.77        16.96         0.99         1.02         2.01 
TCGA-66-2756 TCGA-66-2757 TCGA-66-2759 TCGA-66-2763 TCGA-66-2768 TCGA-66-2769 
        0.99         0.99        25.02         0.99         2.01         7.07 
TCGA-66-2780 TCGA-66-2786 TCGA-66-2789 TCGA-66-2790 TCGA-68-8250 TCGA-77-6842 
       12.03        25.97         4.04        22.98         8.02        29.56 
TCGA-77-6844 TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 TCGA-77-8140 TCGA-77-8143 
       75.09       106.95        46.78        15.75        11.54        26.40 
TCGA-77-8154 TCGA-85-6560 TCGA-85-7699 TCGA-85-7843 TCGA-85-8071 TCGA-85-8276 
       35.90         0.36         0.03         1.15        14.07         0.43 
TCGA-85-8287 TCGA-85-8288 TCGA-85-8350 TCGA-85-8351 TCGA-85-8352 TCGA-85-8664 
        1.45         1.78         1.97         1.81         2.20         0.10 
TCGA-85-A4QR TCGA-90-7766 TCGA-90-7767 TCGA-90-7964 TCGA-94-7033 TCGA-94-7557 
        0.82         9.50         2.93        14.07         2.86         0.16 
TCGA-96-7544 TCGA-98-8020 TCGA-NC-A5HG TCGA-NC-A5HI 
       39.88         2.73        50.86        37.32 

subtype1 subtype2 subtype3 
    0.03     0.13     0.03 
subtype1 subtype2 subtype3 
  173.79   117.57   122.43 
subtype1 subtype2 subtype3 
  13.910   14.335   11.755 
[1] "0.0 - 173.8 (13.9)" "0.1 - 117.6 (14.3)" "0.0 - 122.4 (11.8)"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [79] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[109] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[169] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[205] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[223] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[229] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[241] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[247] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[283] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[295] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[301] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[313] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[319] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[325] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[331] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[337] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[349] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[355] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[361] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[367] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[373] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [79] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[109] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[169] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[205] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[223] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[229] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[241] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[247] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[283] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[295] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[301] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[313] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[319] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[325] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[331] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[337] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[349] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[355] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[361] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[367] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[373] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [79] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[109] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[169] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[205] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[223] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[229] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[241] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[247] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[283] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[295] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[301] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[313] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[319] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[325] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[331] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[337] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[349] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[355] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[361] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[367] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[373] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
D3V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       0       30       58        0        19        29         17
  subtype2       0       20       45        1        16        22         18
  subtype3       1       18       30        0        15        20         19
          vv
clus       STAGE IIIB STAGE IV
  subtype1          6        1
  subtype2         10        2
  subtype3          4        2
D3V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 37 97 22  6
  subtype2 29 84 14  7
  subtype3 27 69  8  6
D3V4, multiclass
          vv
clus        N0  N1  N2  N3
  subtype1 112  35  10   2
  subtype2  76  43  12   2
  subtype3  65  31  12   1
D3V5, multiclass
          vv
clus        M0  M1  MX
  subtype1 140   1  20
  subtype2 113   2  15
  subtype3  95   2  12
D3V6, multiclass
D3V7, binary
          cls
clus         0   1
  subtype1  52 110
  subtype2  23 111
  subtype3  26  84
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   52  110
  subtype2   23  111
  subtype3   26   84
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       52       23       26
  MALE        110      111       84
D3V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     8
  subtype3                                     2
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      4
  subtype2                                      2
  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                                                         155
  subtype2                                                         124
  subtype3                                                         108
D3V9, multiclass
D3V10, binary
          cls
clus         0   1
  subtype1   4 158
  subtype2   6 128
  subtype3   2 108
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  158
  subtype2    6  128
  subtype3    2  108
     clus
vv    subtype1 subtype2 subtype3
  NO         4        6        2
  YES      158      128      108
D3V11, continuous
D3V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 127   3   2  10
  subtype2 109   3   2   8
  subtype3  94   2   0   0
D3V13, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 59 39
  subtype2 56 26
  subtype3 48 21
subtype1 subtype2 subtype3 
      98       82       69 
subtype1 subtype2 subtype3 
      39       26       21 
$subtype1
TCGA-18-3417 TCGA-21-5784 TCGA-21-5787 TCGA-21-A5DI TCGA-22-4605 TCGA-22-4609 
       24.92        41.69        10.82        32.19        32.02         9.53 
TCGA-22-5481 TCGA-22-5489 TCGA-33-4566 TCGA-33-4589 TCGA-33-6737 TCGA-34-5232 
       79.20        62.86       173.79        10.98        19.76        67.79 
TCGA-34-5234 TCGA-34-5236 TCGA-34-5241 TCGA-34-5928 TCGA-39-5011 TCGA-39-5022 
       56.38         9.04        14.07        18.12        47.80        55.17 
TCGA-39-5024 TCGA-39-5028 TCGA-39-5030 TCGA-39-5034 TCGA-39-5039 TCGA-39-5040 
       70.03         1.71         1.94        36.39        17.88        17.06 
TCGA-43-5668 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-7656 TCGA-43-7658 
       11.47        24.89         5.42         3.78         6.97        66.51 
TCGA-52-7811 TCGA-52-7812 TCGA-56-5897 TCGA-56-6545 TCGA-56-6546 TCGA-56-7580 
        8.75        27.45         0.10         2.04         1.02         1.32 
TCGA-56-8503 TCGA-56-8624 TCGA-56-8625 TCGA-56-8626 TCGA-56-8628 TCGA-56-A49D 
        1.35         1.18         2.07         0.56         0.53         0.99 
TCGA-56-A4ZJ TCGA-56-A5DS TCGA-58-8386 TCGA-58-8387 TCGA-58-8388 TCGA-58-8393 
        1.02         0.26         0.03        13.25        12.43        34.78 
TCGA-58-A46J TCGA-60-2697 TCGA-60-2703 TCGA-60-2704 TCGA-60-2709 TCGA-68-7756 
       64.87        12.23        96.82        37.94        49.48         6.64 
TCGA-68-7757 TCGA-68-8251 TCGA-77-6842 TCGA-77-7138 TCGA-77-8007 TCGA-77-8008 
        6.94         3.12        29.56        11.18         6.51        86.76 
TCGA-77-8131 TCGA-77-8136 TCGA-77-8138 TCGA-77-8145 TCGA-77-8146 TCGA-77-8156 
       12.59        39.09        17.69         6.97        71.77         0.33 
TCGA-77-A5FZ TCGA-77-A5GB TCGA-77-A5GH TCGA-85-6560 TCGA-85-7697 TCGA-85-7950 
      126.18        30.81        23.44         0.36         0.33         1.97 
TCGA-85-8048 TCGA-85-8049 TCGA-85-8287 TCGA-85-8350 TCGA-85-8355 TCGA-85-8481 
        0.85         1.97         1.45         1.97         0.66         0.66 
TCGA-85-8582 TCGA-85-8666 TCGA-85-A50M TCGA-85-A513 TCGA-85-A53L TCGA-90-6837 
       13.91        15.58         0.62         0.79         0.43        24.89 
TCGA-90-A4EE TCGA-92-8063 TCGA-92-8065 TCGA-94-7033 TCGA-94-7557 TCGA-94-7943 
       10.88         4.01         2.27         2.86         0.16        11.70 
TCGA-96-8169 TCGA-96-8170 TCGA-96-A4JL TCGA-98-7454 TCGA-98-8022 TCGA-98-8023 
        6.18         6.90         6.02         8.42         7.33        10.13 
TCGA-L3-A4E7 TCGA-NC-A5HE 
        1.15        56.61 

$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        33.93        38.17        34.75 
TCGA-22-4613 TCGA-22-5471 TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 TCGA-22-5482 
       11.77        31.73        63.52        14.60        44.22        11.74 
TCGA-22-5483 TCGA-22-5485 TCGA-33-4582 TCGA-33-4583 TCGA-33-4586 TCGA-33-6738 
       18.84        30.08       103.53       141.34        14.07        26.99 
TCGA-34-5240 TCGA-34-7107 TCGA-39-5016 TCGA-39-5019 TCGA-39-5021 TCGA-39-5027 
       12.00         1.08        74.07        44.71        68.58        60.76 
TCGA-39-5031 TCGA-39-5036 TCGA-39-5037 TCGA-43-6770 TCGA-43-7657 TCGA-43-8115 
       27.35        35.64        35.70        10.19         1.58         6.64 
TCGA-43-8118 TCGA-43-A475 TCGA-46-6025 TCGA-51-6867 TCGA-52-7622 TCGA-56-5898 
        2.93         9.73        10.65        60.99        17.79        18.25 
TCGA-56-7223 TCGA-56-7582 TCGA-56-7730 TCGA-56-8629 TCGA-56-A4BY TCGA-56-A4ZK 
        0.99         0.85         0.20         1.12         0.99         0.13 
TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K TCGA-58-A46L TCGA-58-A46M TCGA-58-A46N 
       71.24        16.47        34.36        36.59        23.24        17.72 
TCGA-68-7755 TCGA-77-6843 TCGA-77-6845 TCGA-77-7141 TCGA-77-7142 TCGA-77-7335 
        2.73        73.08        23.28         0.49        42.25        70.09 
TCGA-77-7338 TCGA-77-8009 TCGA-77-8133 TCGA-77-8150 TCGA-77-8153 TCGA-77-A5G3 
        0.16        53.95        53.92        54.41        55.33       117.57 
TCGA-85-6561 TCGA-85-6798 TCGA-85-7696 TCGA-85-7698 TCGA-85-7844 TCGA-85-8052 
        0.79         1.12         0.59         1.61         1.25         0.53 
TCGA-85-8072 TCGA-85-8276 TCGA-85-8277 TCGA-85-8353 TCGA-85-8354 TCGA-85-8580 
        1.18         0.43         0.36         1.78         2.01        14.60 
TCGA-85-A4CL TCGA-90-7769 TCGA-92-7341 TCGA-92-8064 TCGA-96-7545 TCGA-96-A4JK 
        0.46        11.77         3.48         5.26        44.15         8.98 
TCGA-J1-A4AH TCGA-L3-A524 TCGA-LA-A446 TCGA-MF-A522 
        7.30        14.76         1.18         3.02 

$subtype3
TCGA-18-5595 TCGA-21-5782 TCGA-22-4593 TCGA-22-5472 TCGA-22-5478 TCGA-22-5479 
       27.16        31.63        35.08        64.90         0.79        54.28 
TCGA-22-5480 TCGA-22-5491 TCGA-22-5492 TCGA-22-A5C4 TCGA-33-4587 TCGA-34-5231 
       71.34        56.32        16.60         0.95        54.44        50.24 
TCGA-34-5239 TCGA-34-5927 TCGA-34-5929 TCGA-37-5819 TCGA-39-5029 TCGA-39-5035 
       23.24        30.94         4.96         3.39        24.33        15.58 
TCGA-43-5670 TCGA-43-6143 TCGA-43-8116 TCGA-43-A474 TCGA-43-A56V TCGA-46-6026 
       18.05        12.36         6.35        11.61         5.06        13.87 
TCGA-52-7809 TCGA-52-7810 TCGA-56-7221 TCGA-56-7222 TCGA-56-7579 TCGA-56-7822 
        5.42        30.31         0.99         0.43         1.45         0.03 
TCGA-56-8504 TCGA-56-8622 TCGA-56-A4BX TCGA-58-8390 TCGA-68-8250 TCGA-77-6844 
        5.82         1.78         1.51        29.95         8.02        75.09 
TCGA-77-7139 TCGA-77-7140 TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 TCGA-77-8128 
       89.95        20.78       106.95        46.78        15.75        37.81 
TCGA-77-8130 TCGA-77-8139 TCGA-77-8140 TCGA-77-8143 TCGA-77-8144 TCGA-77-8148 
       82.92       104.09        11.54        26.40        27.39         9.63 
TCGA-77-8154 TCGA-85-7699 TCGA-85-7843 TCGA-85-8070 TCGA-85-8071 TCGA-85-8288 
       35.90         0.03         1.15        16.77        14.07         1.78 
TCGA-85-8351 TCGA-85-8352 TCGA-85-8479 TCGA-85-8664 TCGA-85-A4QR TCGA-90-7766 
        1.81         2.20         0.72         0.10         0.82         9.50 
TCGA-90-7767 TCGA-90-7964 TCGA-90-A4ED TCGA-92-7340 TCGA-96-7544 TCGA-98-8020 
        2.93        14.07         8.02         2.70        39.88         2.73 
TCGA-98-8021 TCGA-NC-A5HG TCGA-NC-A5HI 
       13.58        50.86        37.32 

subtype1 subtype2 subtype3 
    0.03     0.13     0.03 
subtype1 subtype2 subtype3 
  173.79   141.34   106.95 
subtype1 subtype2 subtype3 
    9.83    14.60    14.07 
[1] "0.0 - 173.8 (9.8)"  "0.1 - 141.3 (14.6)" "0.0 - 107.0 (14.1)"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [13] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
 [43] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [49] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[193] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[211] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[241] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[247] "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [13] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
 [43] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [49] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[193] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[211] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[241] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[247] "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [13] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
 [43] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [49] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[193] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[211] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[241] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[247] "subtype1" "subtype3" "subtype3"
D4V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1       24       30        0        17        23         13
  subtype2       1       15       29        1        15        12         12
  subtype3       0       14       19        0        13        13         13
          vv
clus       STAGE IIIB STAGE IV
  subtype1          2        2
  subtype2          2        0
  subtype3          1        0
D4V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 28 66 14  4
  subtype2 26 46 13  2
  subtype3 17 50  6  2
D4V4, multiclass
          vv
clus       N0 N1 N2
  subtype1 70 28  9
  subtype2 57 24  6
  subtype3 44 23  8
D4V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 87  2 23
  subtype2 73  0 14
  subtype3 63  0 10
D4V6, multiclass
D4V7, binary
          cls
clus        0  1
  subtype1 29 83
  subtype2 22 65
  subtype3 16 59
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   29   83
  subtype2   22   65
  subtype3   16   59
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       29       22       16
  MALE         83       65       59
D4V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     1
  subtype2                                     5
  subtype3                                     3
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      3
  subtype2                                      1
  subtype3                                      1
          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                                                         108
  subtype2                                                          81
  subtype3                                                          70
D4V9, multiclass
D4V10, binary
          cls
clus         0   1
  subtype1   5 107
  subtype2   1  86
  subtype3   4  71
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  107
  subtype2    1   86
  subtype3    4   71
     clus
vv    subtype1 subtype2 subtype3
  NO         5        1        4
  YES      107       86       71
D4V11, continuous
D4V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 83  1  0  8
  subtype2 69  3  1  4
  subtype3 58  1  1  1
D4V13, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 39 18
  subtype2 37 32
  subtype3 29 28
subtype1 subtype2 subtype3 
      57       69       57 
subtype1 subtype2 subtype3 
      18       32       28 
$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         7.63       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        23.24        30.94         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-39-5040 TCGA-43-2578 TCGA-43-6143 TCGA-43-6771 TCGA-43-7656 TCGA-43-7658 
       17.06        22.49        12.36         5.42         6.97        66.51 
TCGA-46-6026 TCGA-52-7810 TCGA-52-7812 TCGA-60-2708 TCGA-60-2709 TCGA-60-2711 
       13.87        30.31        27.45        80.42        49.48        41.39 
TCGA-60-2714 TCGA-60-2716 TCGA-66-2727 TCGA-66-2758 TCGA-66-2766 TCGA-66-2767 
       50.33        48.49        16.96        20.98         1.02         2.01 
TCGA-66-2783 TCGA-66-2785 TCGA-66-2790 TCGA-66-2794 TCGA-66-2795 TCGA-77-6842 
       24.95         1.94        22.98        54.08         4.01        29.56 
TCGA-77-6843 TCGA-77-7139 TCGA-77-7141 TCGA-77-7465 TCGA-85-7698 TCGA-85-7699 
       73.08        89.95         0.49        15.75         1.61         0.03 
TCGA-85-7950 TCGA-90-7767 TCGA-96-7544 
        1.97         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       119.54        46.88        70.13         9.30 
TCGA-21-5784 TCGA-21-5786 TCGA-21-5787 TCGA-22-0940 TCGA-22-4607 TCGA-22-5471 
       41.69        33.93        10.82        19.99        19.30        31.73 
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        67.79        56.38         9.04 
TCGA-34-5241 TCGA-34-5928 TCGA-37-3789 TCGA-37-3792 TCGA-39-5011 TCGA-39-5019 
       14.07        18.12         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 
       35.70        18.05        10.19        10.65         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        32.28        23.57        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        38.66 
TCGA-43-3394 TCGA-43-5668 TCGA-51-6867 TCGA-56-5897 TCGA-56-5898 TCGA-56-7221 
       27.02        11.47        60.99         0.10        18.25         0.99 
TCGA-56-7730 TCGA-60-2695 TCGA-60-2704 TCGA-60-2706 TCGA-60-2710 TCGA-60-2712 
        0.20        21.07        37.94        92.71        66.51         9.01 
TCGA-60-2713 TCGA-60-2719 TCGA-60-2725 TCGA-66-2737 TCGA-66-2770 TCGA-66-2773 
       56.91        42.61        26.79         2.01        23.01         3.02 
TCGA-66-2777 TCGA-66-2800 TCGA-68-7756 TCGA-77-6844 TCGA-77-7142 TCGA-77-7335 
        2.01        49.05         6.64        75.09        42.25        70.09 
TCGA-85-6560 TCGA-85-7696 TCGA-85-7697 TCGA-90-6837 TCGA-90-7766 TCGA-90-7769 
        0.36         0.59         0.33        24.89         9.50        11.77 
TCGA-94-7557 TCGA-94-7943 TCGA-98-7454 
        0.16        11.70         8.42 

subtype1 subtype2 subtype3 
    0.03     0.16     0.10 
subtype1 subtype2 subtype3 
  173.79   119.54   119.80 
subtype1 subtype2 subtype3 
   23.24    18.05    15.55 
[1] "0.0 - 173.8 (23.2)" "0.2 - 119.5 (18.1)" "0.1 - 119.8 (15.6)"
  [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" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [91] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[157] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[169] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[175] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "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" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [91] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[157] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[169] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[175] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "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" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [91] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[157] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[169] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[175] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "subtype3"
D5V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       0       10       17        0         7        11          7
  subtype2       0        7       26        0        11        16          8
  subtype3       1       11       26        1         5         7          8
          vv
clus       STAGE IIIB
  subtype1          8
  subtype2          4
  subtype3          2
D5V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 15 35  4  6
  subtype2 11 51  9  2
  subtype3 18 34  7  3
D5V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 34 17  7  2
  subtype2 44 22  5  2
  subtype3 46 11  4  0
D5V5, multiclass
          vv
clus       M0 MX
  subtype1 54  6
  subtype2 67  4
  subtype3 55  6
D5V6, multiclass
    clus
vv   subtype1 subtype2 subtype3
  M0       54       67       55
  MX        6        4        6
D5V7, binary
          cls
clus        0  1
  subtype1 12 48
  subtype2 17 56
  subtype3 20 42
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   12   48
  subtype2   17   56
  subtype3   20   42
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       12       17       20
  MALE         48       56       42
D5V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     0
  subtype3                                     1
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      2
  subtype2                                      0
  subtype3                                      0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          56
  subtype2                                                          73
  subtype3                                                          61
D5V9, multiclass
D5V10, binary
          cls
clus        0  1
  subtype1  4 56
  subtype2  2 71
  subtype3  3 59
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   56
  subtype2    2   71
  subtype3    3   59
     clus
vv    subtype1 subtype2 subtype3
  NO         4        2        3
  YES       56       71       59
D5V11, continuous
D5V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 43  0  2  5
  subtype2 55  4  2  4
  subtype3 51  0  0  0
D5V13, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 33 21
  subtype2 28 17
  subtype3 28 18
  subtype4 16 22
subtype1 subtype2 subtype3 subtype4 
      54       45       46       38 
subtype1 subtype2 subtype3 subtype4 
      21       17       18       22 
$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        23.24         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-39-5040 TCGA-43-2581 
       24.33         1.94        36.39        15.58        17.06        38.66 
TCGA-43-6143 TCGA-43-6771 TCGA-43-7656 TCGA-43-7658 TCGA-52-7812 TCGA-60-2695 
       12.36         5.42         6.97        66.51        27.45        21.07 
TCGA-60-2709 TCGA-60-2711 TCGA-60-2712 TCGA-60-2714 TCGA-60-2716 TCGA-66-2785 
       49.48        41.39         9.01        50.33        48.49         1.94 
TCGA-66-2794 TCGA-66-2795 TCGA-77-6842 TCGA-77-6843 TCGA-77-7139 TCGA-77-7141 
       54.08         4.01        29.56        73.08        89.95         0.49 
TCGA-77-7335 TCGA-77-7465 TCGA-85-7699 TCGA-85-7950 TCGA-90-7767 TCGA-96-7544 
       70.09        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         7.63        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        22.49        27.02 
TCGA-43-5668 TCGA-46-6026 TCGA-51-6867 TCGA-52-7810 TCGA-56-5898 TCGA-56-7730 
       11.47        13.87        60.99        30.31        18.25         0.20 
TCGA-60-2704 TCGA-60-2708 TCGA-60-2710 TCGA-60-2713 TCGA-60-2719 TCGA-66-2758 
       37.94        80.42        66.51        56.91        42.61        20.98 
TCGA-66-2766 TCGA-66-2767 TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 TCGA-66-2783 
        1.02         2.01        23.01         3.02         2.01        24.95 
TCGA-66-2790 TCGA-66-2800 TCGA-77-6844 TCGA-77-7142 TCGA-85-7696 TCGA-85-7698 
       22.98        49.05        75.09        42.25         0.59         1.61 
TCGA-90-7766 TCGA-94-7557 TCGA-94-7943 
        9.50         0.16        11.70 

$subtype3
TCGA-21-1070 TCGA-21-1071 TCGA-21-1081 TCGA-21-5782 TCGA-21-5786 TCGA-22-0940 
      119.54        46.88         9.30        31.63        33.93        19.99 
TCGA-22-4607 TCGA-22-5471 TCGA-22-5479 TCGA-22-5492 TCGA-33-4547 TCGA-34-5232 
       19.30        31.73        54.28        16.60        43.10        67.79 
TCGA-34-5236 TCGA-34-5928 TCGA-37-3789 TCGA-39-5011 TCGA-39-5019 TCGA-39-5021 
        9.04        18.12         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 
       35.70        18.05        10.19        10.65         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        32.28        23.57        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        41.69         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        56.38        14.07        30.94 
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        92.71        26.79        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        24.89        11.77 
TCGA-94-7033 TCGA-98-7454 
        2.86         8.42 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.16     0.16     0.10 
subtype1 subtype2 subtype3 subtype4 
  173.79    99.16   119.54    92.71 
subtype1 subtype2 subtype3 subtype4 
  23.785   22.980   18.085   12.000 
[1] "0.0 - 173.8 (23.8)" "0.2 - 99.2 (23.0)"  "0.2 - 119.5 (18.1)"
[4] "0.1 - 92.7 (12.0)" 
  [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] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[103] "subtype2" "subtype3" "subtype4" "subtype4" "subtype3" "subtype2"
[109] "subtype1" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
[115] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[145] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[151] "subtype4" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype4"
[169] "subtype2" "subtype1" "subtype3" "subtype4" "subtype1" "subtype4"
[175] "subtype2" "subtype1" "subtype4" "subtype3" "subtype4" "subtype2"
[181] "subtype2" "subtype1" "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] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[103] "subtype2" "subtype3" "subtype4" "subtype4" "subtype3" "subtype2"
[109] "subtype1" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
[115] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[145] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[151] "subtype4" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype4"
[169] "subtype2" "subtype1" "subtype3" "subtype4" "subtype1" "subtype4"
[175] "subtype2" "subtype1" "subtype4" "subtype3" "subtype4" "subtype2"
[181] "subtype2" "subtype1" "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] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[103] "subtype2" "subtype3" "subtype4" "subtype4" "subtype3" "subtype2"
[109] "subtype1" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
[115] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[145] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[151] "subtype4" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype4"
[169] "subtype2" "subtype1" "subtype3" "subtype4" "subtype1" "subtype4"
[175] "subtype2" "subtype1" "subtype4" "subtype3" "subtype4" "subtype2"
[181] "subtype2" "subtype1" "subtype4"
D6V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       0       10       15        0         8        10          9
  subtype2       1        8       19        0         3         7          6
  subtype3       0        3       18        0         8        11          4
  subtype4       0        7       17        1         4         6          4
          vv
clus       STAGE IIIB
  subtype1          6
  subtype2          4
  subtype3          4
  subtype4          0
D6V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 14 33  5  6
  subtype2 16 25  5  2
  subtype3  6 36  6  1
  subtype4  8 26  4  2
D6V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 33 16  9  0
  subtype2 32  9  4  2
  subtype3 29 17  1  2
  subtype4 30  8  2  0
D6V5, multiclass
          vv
clus       M0 MX
  subtype1 53  5
  subtype2 45  3
  subtype3 45  2
  subtype4 33  6
D6V6, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0       53       45       45       33
  MX        5        3        2        6
D6V7, binary
          cls
clus        0  1
  subtype1 15 43
  subtype2 14 34
  subtype3 11 38
  subtype4  9 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15   43
  subtype2   14   34
  subtype3   11   38
  subtype4    9   31
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       15       14       11        9
  MALE         43       34       38       31
D6V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     3
  subtype2                                     0
  subtype3                                     0
  subtype4                                     0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      2
  subtype2                                      0
  subtype3                                      0
  subtype4                                      0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                          53
  subtype2                                                          48
  subtype3                                                          49
  subtype4                                                          40
D6V9, multiclass
D6V10, binary
          cls
clus        0  1
  subtype1  4 54
  subtype2  3 45
  subtype3  1 48
  subtype4  1 39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   54
  subtype2    3   45
  subtype3    1   48
  subtype4    1   39
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         4        3        1        1
  YES       54       45       48       39
D6V11, continuous
D6V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 47  0  0  5
  subtype2 38  0  2  0
  subtype3 36  4  2  2
  subtype4 28  0  0  2
D6V13, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 55 33
  subtype2 76 37
  subtype3 70 38
  subtype4 34 27
subtype1 subtype2 subtype3 subtype4 
      88      113      108       61 
subtype1 subtype2 subtype3 subtype4 
      33       37       38       27 
$subtype1
TCGA-18-3406 TCGA-18-3407 TCGA-18-3412 TCGA-18-3414 TCGA-18-3419 TCGA-21-1070 
       12.16         4.47        11.34        13.02         1.61       119.54 
TCGA-21-1080 TCGA-21-1081 TCGA-21-1082 TCGA-21-A5DI TCGA-22-0944 TCGA-22-1011 
      122.43         9.30       119.80        32.19         7.33         1.74 
TCGA-22-1012 TCGA-22-4607 TCGA-22-5471 TCGA-22-5491 TCGA-33-4547 TCGA-33-4589 
       14.10        19.30        31.73        56.32        43.10        10.98 
TCGA-34-5232 TCGA-34-5236 TCGA-34-5241 TCGA-37-3783 TCGA-37-3789 TCGA-39-5024 
       67.79         9.04        14.07         3.95         0.43        70.03 
TCGA-39-5028 TCGA-39-5029 TCGA-39-5031 TCGA-39-5035 TCGA-43-6771 TCGA-43-8118 
        1.71        24.33        27.35        15.58         5.42         2.93 
TCGA-43-A56V TCGA-52-7810 TCGA-52-7811 TCGA-56-1622 TCGA-56-5897 TCGA-56-7221 
        5.06        30.31         8.75        28.93         0.10         0.99 
TCGA-56-7579 TCGA-56-7822 TCGA-56-8504 TCGA-56-A5DS TCGA-58-A46L TCGA-60-2707 
        1.45         0.03         5.82         0.26        36.59        21.70 
TCGA-60-2708 TCGA-60-2716 TCGA-60-2721 TCGA-60-2724 TCGA-66-2734 TCGA-66-2759 
       80.42        48.49        32.28        23.57        43.10        25.02 
TCGA-66-2763 TCGA-66-2765 TCGA-66-2771 TCGA-66-2778 TCGA-66-2780 TCGA-66-2781 
        0.99         2.01        19.00        19.00        12.03         3.98 
TCGA-66-2782 TCGA-66-2788 TCGA-68-7757 TCGA-77-6844 TCGA-77-7138 TCGA-77-7337 
       12.00        22.98         6.94        75.09        11.18       106.95 
TCGA-77-7463 TCGA-77-8008 TCGA-77-8130 TCGA-77-8131 TCGA-77-8136 TCGA-77-8140 
       46.78        86.76        82.92        12.59        39.09        11.54 
TCGA-77-8143 TCGA-77-8144 TCGA-77-8145 TCGA-77-8154 TCGA-77-A5GB TCGA-85-7697 
       26.40        27.39         6.97        35.90        30.81         0.33 
TCGA-85-7843 TCGA-85-8071 TCGA-85-8479 TCGA-85-8582 TCGA-85-8666 TCGA-85-A4QR 
        1.15        14.07         0.72        13.91        15.58         0.82 
TCGA-90-6837 TCGA-90-7766 TCGA-92-7340 TCGA-92-8065 TCGA-94-7033 TCGA-96-7544 
       24.89         9.50         2.70         2.27         2.86        39.88 
TCGA-96-8170 TCGA-98-8020 TCGA-NC-A5HG TCGA-NC-A5HI 
        6.90         2.73        50.86        37.32 

$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 
        7.63        97.94       141.34        14.07         2.63        12.00 
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-43-A474 TCGA-43-A475 
       35.64        35.70        27.02        10.19        11.61         9.73 
TCGA-46-3768 TCGA-46-6025 TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-51-6867 
        9.96        10.65         0.39         0.39        29.95        60.99 
TCGA-56-5898 TCGA-56-7582 TCGA-56-7730 TCGA-56-A4BX TCGA-56-A4BY TCGA-56-A4ZK 
       18.25         0.85         0.20         1.51         0.99         0.13 
TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K TCGA-58-A46M TCGA-60-2709 TCGA-60-2710 
       71.24        16.47        34.36        23.24        49.48        66.51 
TCGA-60-2711 TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 TCGA-66-2737 TCGA-66-2758 
       41.39        29.85        35.90        16.96         2.01        20.98 
TCGA-66-2766 TCGA-66-2770 TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 TCGA-66-2794 
        1.02        23.01        40.01         5.03        30.02        54.08 
TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 
        4.01        49.05         2.73        73.08        23.28        89.95 
TCGA-77-7140 TCGA-77-7141 TCGA-77-7142 TCGA-77-7335 TCGA-77-7338 TCGA-77-8009 
       20.78         0.49        42.25        70.09         0.16        53.95 
TCGA-77-8128 TCGA-77-8133 TCGA-77-8150 TCGA-77-8153 TCGA-77-8156 TCGA-77-A5G3 
       37.81        53.92        54.41        55.33         0.33       117.57 
TCGA-85-6561 TCGA-85-6798 TCGA-85-7696 TCGA-85-7698 TCGA-85-7844 TCGA-85-8052 
        0.79         1.12         0.59         1.61         1.25         0.53 
TCGA-85-8070 TCGA-85-8072 TCGA-85-8276 TCGA-85-8277 TCGA-85-8354 TCGA-85-8355 
       16.77         1.18         0.43         0.36         2.01         0.66 
TCGA-85-8580 TCGA-85-A4CL TCGA-90-7769 TCGA-92-7341 TCGA-92-8064 TCGA-96-7545 
       14.60         0.46        11.77         3.48         5.26        44.15 
TCGA-96-A4JK TCGA-J1-A4AH TCGA-L3-A524 TCGA-LA-A446 TCGA-MF-A522 
        8.98         7.30        14.76         1.18         3.02 

$subtype3
TCGA-18-3409 TCGA-18-3410 TCGA-18-3417 TCGA-21-1078 TCGA-21-1079 TCGA-21-1083 
       79.46         4.80        24.92        15.55        31.69         8.78 
TCGA-21-5782 TCGA-21-5783 TCGA-21-5786 TCGA-22-0940 TCGA-22-1016 TCGA-22-4593 
       31.63        88.08        33.93        19.99        27.02        35.08 
TCGA-22-4595 TCGA-22-5478 TCGA-22-5480 TCGA-22-5481 TCGA-22-5483 TCGA-22-5489 
       24.13         0.79        71.34        79.20        18.84        62.86 
TCGA-22-A5C4 TCGA-33-4533 TCGA-33-4566 TCGA-33-4582 TCGA-33-4587 TCGA-34-2600 
        0.95       114.05       173.79       103.53        54.44        61.61 
TCGA-34-5231 TCGA-34-5239 TCGA-34-5927 TCGA-34-5928 TCGA-34-5929 TCGA-37-3792 
       50.24        23.24        30.94        18.12         4.96         0.39 
TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 
        6.54         8.09         7.46         6.81         0.39         3.39 
TCGA-39-5030 TCGA-39-5034 TCGA-39-5040 TCGA-43-2581 TCGA-43-3920 TCGA-43-5668 
        1.94        36.39        17.06        38.66        33.07        11.47 
TCGA-43-5670 TCGA-43-6143 TCGA-43-6647 TCGA-43-7656 TCGA-43-7657 TCGA-43-7658 
       18.05        12.36        24.89         6.97         1.58        66.51 
TCGA-43-8115 TCGA-43-8116 TCGA-46-6026 TCGA-52-7809 TCGA-56-6545 TCGA-56-6546 
        6.64         6.35        13.87         5.42         2.04         1.02 
TCGA-56-7223 TCGA-56-7580 TCGA-56-8503 TCGA-56-8625 TCGA-56-8626 TCGA-56-8628 
        0.99         1.32         1.35         2.07         0.56         0.53 
TCGA-56-8629 TCGA-58-8387 TCGA-58-8388 TCGA-58-8390 TCGA-60-2695 TCGA-60-2703 
        1.12        13.25        12.43        29.95        21.07        96.82 
TCGA-60-2712 TCGA-60-2713 TCGA-60-2720 TCGA-60-2726 TCGA-66-2744 TCGA-66-2754 
        9.01        56.91         3.16        11.77         0.99         2.01 
TCGA-66-2755 TCGA-66-2756 TCGA-66-2757 TCGA-66-2768 TCGA-66-2769 TCGA-66-2785 
        0.92         0.99         0.99         2.01         7.07         1.94 
TCGA-66-2789 TCGA-66-2790 TCGA-66-2793 TCGA-68-8251 TCGA-77-6842 TCGA-77-7465 
        4.04        22.98        10.06         3.12        29.56        15.75 
TCGA-77-8007 TCGA-77-8139 TCGA-77-8148 TCGA-77-A5GH TCGA-85-6560 TCGA-85-7699 
        6.51       104.09         9.63        23.44         0.36         0.03 
TCGA-85-7950 TCGA-85-8048 TCGA-85-8287 TCGA-85-8288 TCGA-85-8350 TCGA-85-8352 
        1.97         0.85         1.45         1.78         1.97         2.20 
TCGA-85-8481 TCGA-85-A53L TCGA-90-7767 TCGA-90-A4ED TCGA-90-A4EE TCGA-92-8063 
        0.66         0.43         2.93         8.02        10.88         4.01 
TCGA-94-7557 TCGA-96-A4JL TCGA-98-8021 TCGA-98-8022 TCGA-98-8023 TCGA-NC-A5HE 
        0.16         6.02        13.58         7.33        10.13        56.61 

$subtype4
TCGA-18-3421 TCGA-21-5784 TCGA-21-5787 TCGA-22-1002 TCGA-22-1005 TCGA-22-1017 
       43.76        41.69        10.82         4.31        64.21        48.82 
TCGA-22-4591 TCGA-22-4594 TCGA-22-4596 TCGA-22-4605 TCGA-22-4609 TCGA-22-5472 
       20.45        48.33         0.56        32.02         9.53        64.90 
TCGA-22-5492 TCGA-33-6737 TCGA-33-6738 TCGA-34-2608 TCGA-34-5234 TCGA-39-5011 
       16.60        19.76        26.99        32.84        56.38        47.80 
TCGA-39-5022 TCGA-39-5039 TCGA-43-2578 TCGA-43-6773 TCGA-52-7622 TCGA-52-7812 
       55.17        17.88        22.49         3.78        17.79        27.45 
TCGA-56-7222 TCGA-56-8624 TCGA-56-A49D TCGA-56-A4ZJ TCGA-58-8386 TCGA-58-8393 
        0.43         1.18         0.99         1.02         0.03        34.78 
TCGA-60-2696 TCGA-60-2697 TCGA-60-2698 TCGA-60-2704 TCGA-60-2706 TCGA-60-2714 
        3.58        12.23        10.22        37.94        92.71        50.33 
TCGA-60-2715 TCGA-60-2719 TCGA-60-2725 TCGA-66-2742 TCGA-66-2753 TCGA-66-2767 
       35.34        42.61        26.79        21.07         1.02         2.01 
TCGA-66-2773 TCGA-66-2777 TCGA-66-2783 TCGA-66-2786 TCGA-68-7756 TCGA-68-8250 
        3.02         2.01        24.95        25.97         6.64         8.02 
TCGA-77-8138 TCGA-77-8146 TCGA-77-A5FZ TCGA-85-8049 TCGA-85-8351 TCGA-85-8353 
       17.69        71.77       126.18         1.97         1.81         1.78 
TCGA-85-A50M TCGA-85-A513 TCGA-90-7964 TCGA-94-7943 TCGA-96-8169 TCGA-98-7454 
        0.62         0.79        14.07        11.70         6.18         8.42 
TCGA-L3-A4E7 
        1.15 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.13     0.03     0.03 
subtype1 subtype2 subtype3 subtype4 
  122.43   141.34   173.79   126.18 
subtype1 subtype2 subtype3 subtype4 
  13.990   16.960    8.435   17.690 
[1] "0.0 - 122.4 (14.0)" "0.1 - 141.3 (17.0)" "0.0 - 173.8 (8.4)" 
[4] "0.0 - 126.2 (17.7)"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype1"
 [37] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
 [43] "subtype3" "subtype4" "subtype4" "subtype3" "subtype4" "subtype3"
 [49] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype4" "subtype2" "subtype1" "subtype4" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
 [73] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
 [85] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
 [91] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [97] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype4" "subtype3" "subtype4"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype4" "subtype3" "subtype1" "subtype1"
[157] "subtype4" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype4" "subtype3" "subtype1" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype3" "subtype1" "subtype4" "subtype3"
[175] "subtype3" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[181] "subtype4" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[187] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[193] "subtype2" "subtype3" "subtype4" "subtype4" "subtype4" "subtype3"
[199] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[205] "subtype2" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
[211] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[217] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype4"
[223] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype4"
[235] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
[247] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype4" "subtype1" "subtype4" "subtype3" "subtype3" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype1" "subtype4" "subtype3" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype4" "subtype3" "subtype2" "subtype2"
[295] "subtype1" "subtype2" "subtype4" "subtype2" "subtype1" "subtype3"
[301] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[307] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype4"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[319] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype4"
[325] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[331] "subtype1" "subtype2" "subtype1" "subtype4" "subtype4" "subtype3"
[337] "subtype1" "subtype1" "subtype3" "subtype2" "subtype4" "subtype3"
[343] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[349] "subtype1" "subtype3" "subtype4" "subtype1" "subtype2" "subtype4"
[355] "subtype1" "subtype2" "subtype3" "subtype4" "subtype1" "subtype3"
[361] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype2"
[367] "subtype2" "subtype3" "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype1"
 [37] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
 [43] "subtype3" "subtype4" "subtype4" "subtype3" "subtype4" "subtype3"
 [49] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype4" "subtype2" "subtype1" "subtype4" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
 [73] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
 [85] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
 [91] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [97] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype4" "subtype3" "subtype4"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype4" "subtype3" "subtype1" "subtype1"
[157] "subtype4" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype4" "subtype3" "subtype1" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype3" "subtype1" "subtype4" "subtype3"
[175] "subtype3" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[181] "subtype4" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[187] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[193] "subtype2" "subtype3" "subtype4" "subtype4" "subtype4" "subtype3"
[199] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[205] "subtype2" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
[211] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[217] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype4"
[223] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype4"
[235] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
[247] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype4" "subtype1" "subtype4" "subtype3" "subtype3" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype1" "subtype4" "subtype3" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype4" "subtype3" "subtype2" "subtype2"
[295] "subtype1" "subtype2" "subtype4" "subtype2" "subtype1" "subtype3"
[301] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[307] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype4"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[319] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype4"
[325] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[331] "subtype1" "subtype2" "subtype1" "subtype4" "subtype4" "subtype3"
[337] "subtype1" "subtype1" "subtype3" "subtype2" "subtype4" "subtype3"
[343] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[349] "subtype1" "subtype3" "subtype4" "subtype1" "subtype2" "subtype4"
[355] "subtype1" "subtype2" "subtype3" "subtype4" "subtype1" "subtype3"
[361] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype2"
[367] "subtype2" "subtype3" "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype1"
 [37] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
 [43] "subtype3" "subtype4" "subtype4" "subtype3" "subtype4" "subtype3"
 [49] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype4" "subtype2" "subtype1" "subtype4" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
 [73] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
 [85] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
 [91] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [97] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype4" "subtype3" "subtype4"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype4" "subtype3" "subtype1" "subtype1"
[157] "subtype4" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype4" "subtype3" "subtype1" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype3" "subtype1" "subtype4" "subtype3"
[175] "subtype3" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[181] "subtype4" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[187] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[193] "subtype2" "subtype3" "subtype4" "subtype4" "subtype4" "subtype3"
[199] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[205] "subtype2" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
[211] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[217] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype4"
[223] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype4"
[235] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
[247] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype4" "subtype1" "subtype4" "subtype3" "subtype3" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype1" "subtype4" "subtype3" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype4" "subtype3" "subtype2" "subtype2"
[295] "subtype1" "subtype2" "subtype4" "subtype2" "subtype1" "subtype3"
[301] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[307] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype4"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[319] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype4"
[325] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[331] "subtype1" "subtype2" "subtype1" "subtype4" "subtype4" "subtype3"
[337] "subtype1" "subtype1" "subtype3" "subtype2" "subtype4" "subtype3"
[343] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[349] "subtype1" "subtype3" "subtype4" "subtype1" "subtype2" "subtype4"
[355] "subtype1" "subtype2" "subtype3" "subtype4" "subtype1" "subtype3"
[361] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype2"
[367] "subtype2" "subtype3" "subtype1" "subtype1"
D7V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1       15       36        0         8        18         14
  subtype2       1       13       44        1        16        22         13
  subtype3       0       22       30        0        19        21         16
  subtype4       0       19       19        0         7         6         10
          vv
clus       STAGE IIIB STAGE IV
  subtype1          2        1
  subtype2          8        0
  subtype3          6        2
  subtype4          3        2
D7V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 19 63 11  3
  subtype2 23 76 12  7
  subtype3 31 66 14  6
  subtype4 22 36  7  2
D7V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 59 25  9  1
  subtype2 73 35  9  1
  subtype3 76 34  6  1
  subtype4 43 10  9  2
D7V5, multiclass
          vv
clus        M0  M1  MX
  subtype1  81   1  12
  subtype2 105   0  11
  subtype3  99   2  15
  subtype4  55   2   9
D7V6, multiclass
D7V7, binary
          cls
clus        0  1
  subtype1 23 73
  subtype2 26 92
  subtype3 30 87
  subtype4 20 47
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   23   73
  subtype2   26   92
  subtype3   30   87
  subtype4   20   47
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       23       26       30       20
  MALE         73       92       87       47
D7V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     4
  subtype3                                     5
  subtype4                                     0
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      2
  subtype2                                      1
  subtype3                                      1
  subtype4                                      2
          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                                                          92
  subtype2                                                         113
  subtype3                                                         110
  subtype4                                                          65
D7V9, multiclass
D7V10, binary
          cls
clus         0   1
  subtype1   2  94
  subtype2   1 117
  subtype3   5 112
  subtype4   3  64
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   94
  subtype2    1  117
  subtype3    5  112
  subtype4    3   64
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         2        1        5        3
  YES       94      117      112       64
D7V11, continuous
D7V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  76   2   2   3
  subtype2 101   4   0   5
  subtype3  93   2   1   5
  subtype4  52   0   1   5
D7V13, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1  49  28
  subtype2  72  38
  subtype3 114  69
subtype1 subtype2 subtype3 
      77      110      183 
subtype1 subtype2 subtype3 
      28       38       69 
$subtype1
TCGA-18-3409 TCGA-18-3410 TCGA-18-3417 TCGA-21-1083 TCGA-21-5783 TCGA-21-5786 
       79.46         4.80        24.92         8.78        88.08        33.93 
TCGA-22-4593 TCGA-22-4594 TCGA-22-5480 TCGA-22-5481 TCGA-22-5483 TCGA-22-5489 
       35.08        48.33        71.34        79.20        18.84        62.86 
TCGA-33-4533 TCGA-33-4582 TCGA-33-4587 TCGA-34-2600 TCGA-34-5239 TCGA-34-5927 
      114.05       103.53        54.44        61.61        23.24        30.94 
TCGA-34-5928 TCGA-34-5929 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 TCGA-37-4135 
       18.12         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-39-5040 
        0.39         3.39         1.94        36.39        15.58        17.06 
TCGA-43-2578 TCGA-43-3920 TCGA-43-5668 TCGA-43-6143 TCGA-43-7656 TCGA-43-7657 
       22.49        33.07        11.47        12.36         6.97         1.58 
TCGA-43-7658 TCGA-43-8115 TCGA-43-8116 TCGA-52-7809 TCGA-56-6546 TCGA-56-7223 
       66.51         6.64         6.35         5.42         1.02         0.99 
TCGA-56-8625 TCGA-58-8387 TCGA-58-8388 TCGA-58-8390 TCGA-60-2695 TCGA-60-2703 
        2.07        13.25        12.43        29.95        21.07        96.82 
TCGA-60-2708 TCGA-60-2712 TCGA-60-2726 TCGA-66-2754 TCGA-66-2755 TCGA-66-2756 
       80.42         9.01        11.77         2.01         0.92         0.99 
TCGA-66-2757 TCGA-66-2781 TCGA-66-2790 TCGA-66-2793 TCGA-68-8251 TCGA-77-6842 
        0.99         3.98        22.98        10.06         3.12        29.56 
TCGA-77-7465 TCGA-77-8145 TCGA-77-A5GH TCGA-85-6560 TCGA-85-7699 TCGA-85-7950 
       15.75         6.97        23.44         0.36         0.03         1.97 
TCGA-85-8276 TCGA-85-8287 TCGA-85-8288 TCGA-85-8352 TCGA-85-A53L TCGA-90-7767 
        0.43         1.45         1.78         2.20         0.43         2.93 
TCGA-90-A4ED TCGA-90-A4EE TCGA-98-8021 TCGA-98-8022 TCGA-98-8023 
        8.02        10.88        13.58         7.33        10.13 

$subtype2
TCGA-18-3407 TCGA-18-3408 TCGA-18-3411 TCGA-18-3415 TCGA-18-3416 TCGA-18-4083 
        4.47        81.07        46.52        59.51        28.34         6.15 
TCGA-18-4086 TCGA-18-4721 TCGA-18-5592 TCGA-18-5595 TCGA-21-1071 TCGA-21-1072 
        2.79        90.51         3.02        27.16        46.88        99.16 
TCGA-21-1075 TCGA-21-1076 TCGA-21-1077 TCGA-22-4599 TCGA-22-4601 TCGA-22-4604 
       70.13        60.89        34.78        38.17        34.75        13.12 
TCGA-22-4609 TCGA-22-4613 TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 TCGA-22-5482 
        9.53        11.77        63.52        14.60        44.22        11.74 
TCGA-22-5485 TCGA-33-4583 TCGA-33-4586 TCGA-34-2596 TCGA-34-5240 TCGA-34-7107 
       30.08       141.34        14.07         2.63        12.00         1.08 
TCGA-37-4133 TCGA-39-5016 TCGA-39-5021 TCGA-39-5036 TCGA-39-5037 TCGA-43-3394 
        7.82        74.07        68.58        35.64        35.70        27.02 
TCGA-43-6770 TCGA-43-8118 TCGA-43-A475 TCGA-46-3768 TCGA-46-6025 TCGA-51-4079 
       10.19         2.93         9.73         9.96        10.65         0.39 
TCGA-51-4080 TCGA-51-4081 TCGA-51-6867 TCGA-52-7622 TCGA-56-5898 TCGA-56-7579 
        0.39        29.95        60.99        17.79        18.25         1.45 
TCGA-56-7582 TCGA-56-7730 TCGA-56-A4BX TCGA-56-A4ZK TCGA-58-8391 TCGA-58-8392 
        0.85         0.20         1.51         0.13        71.24        16.47 
TCGA-58-A46K TCGA-58-A46M TCGA-60-2709 TCGA-60-2710 TCGA-60-2711 TCGA-60-2713 
       34.36        23.24        49.48        66.51        41.39        56.91 
TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 TCGA-66-2737 TCGA-66-2758 TCGA-66-2759 
       29.85        35.90        16.96         2.01        20.98        25.02 
TCGA-66-2766 TCGA-66-2767 TCGA-66-2770 TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 
        1.02         2.01        23.01        40.01         5.03        30.02 
TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 
        4.01        49.05         2.73        73.08        23.28        89.95 
TCGA-77-7140 TCGA-77-7141 TCGA-77-7338 TCGA-77-8009 TCGA-77-8128 TCGA-77-8133 
       20.78         0.49         0.16        53.95        37.81        53.92 
TCGA-77-8148 TCGA-77-8150 TCGA-77-8153 TCGA-77-8156 TCGA-77-A5G3 TCGA-85-6561 
        9.63        54.41        55.33         0.33       117.57         0.79 
TCGA-85-6798 TCGA-85-7696 TCGA-85-7698 TCGA-85-7844 TCGA-85-8052 TCGA-85-8070 
        1.12         0.59         1.61         1.25         0.53        16.77 
TCGA-85-8072 TCGA-85-8277 TCGA-85-8354 TCGA-85-8580 TCGA-85-A4CL TCGA-90-7769 
        1.18         0.36         2.01        14.60         0.46        11.77 
TCGA-92-7341 TCGA-92-8064 TCGA-96-7545 TCGA-96-A4JK TCGA-J1-A4AH TCGA-L3-A524 
        3.48         5.26        44.15         8.98         7.30        14.76 
TCGA-LA-A446 TCGA-MF-A522 
        1.18         3.02 

$subtype3
TCGA-18-3406 TCGA-18-3412 TCGA-18-3414 TCGA-18-3419 TCGA-18-3421 TCGA-21-1070 
       12.16        11.34        13.02         1.61        43.76       119.54 
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-21-A5DI TCGA-22-0940 TCGA-22-0944 TCGA-22-1002 
       41.69        10.82        32.19        19.99         7.33         4.31 
TCGA-22-1005 TCGA-22-1011 TCGA-22-1012 TCGA-22-1016 TCGA-22-1017 TCGA-22-4591 
       64.21         1.74        14.10        27.02        48.82        20.45 
TCGA-22-4595 TCGA-22-4596 TCGA-22-4605 TCGA-22-4607 TCGA-22-5471 TCGA-22-5472 
       24.13         0.56        32.02        19.30        31.73        64.90 
TCGA-22-5478 TCGA-22-5479 TCGA-22-5491 TCGA-22-5492 TCGA-22-A5C4 TCGA-33-4532 
        0.79        54.28        56.32        16.60         0.95         7.63 
TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 TCGA-33-4589 TCGA-33-6737 TCGA-33-6738 
       97.94        43.10       173.79        10.98        19.76        26.99 
TCGA-34-2608 TCGA-34-5231 TCGA-34-5232 TCGA-34-5234 TCGA-34-5236 TCGA-34-5241 
       32.84        50.24        67.79        56.38         9.04        14.07 
TCGA-37-3783 TCGA-37-3789 TCGA-37-3792 TCGA-39-5011 TCGA-39-5019 TCGA-39-5022 
        3.95         0.43         0.39        47.80        44.71        55.17 
TCGA-39-5024 TCGA-39-5027 TCGA-39-5028 TCGA-39-5029 TCGA-39-5031 TCGA-39-5039 
       70.03        60.76         1.71        24.33        27.35        17.88 
TCGA-43-2581 TCGA-43-5670 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-A474 
       38.66        18.05        24.89         5.42         3.78        11.61 
TCGA-43-A56V TCGA-46-6026 TCGA-52-7810 TCGA-52-7811 TCGA-52-7812 TCGA-56-1622 
        5.06        13.87        30.31         8.75        27.45        28.93 
TCGA-56-5897 TCGA-56-6545 TCGA-56-7221 TCGA-56-7222 TCGA-56-7580 TCGA-56-7822 
        0.10         2.04         0.99         0.43         1.32         0.03 
TCGA-56-8503 TCGA-56-8504 TCGA-56-8624 TCGA-56-8626 TCGA-56-8628 TCGA-56-8629 
        1.35         5.82         1.18         0.56         0.53         1.12 
TCGA-56-A49D TCGA-56-A4BY TCGA-56-A4ZJ TCGA-56-A5DS TCGA-58-8386 TCGA-58-8393 
        0.99         0.99         1.02         0.26         0.03        34.78 
TCGA-58-A46L TCGA-60-2696 TCGA-60-2697 TCGA-60-2698 TCGA-60-2704 TCGA-60-2706 
       36.59         3.58        12.23        10.22        37.94        92.71 
TCGA-60-2707 TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 
       21.70        50.33        35.34        48.49        42.61         3.16 
TCGA-60-2721 TCGA-60-2724 TCGA-60-2725 TCGA-66-2734 TCGA-66-2742 TCGA-66-2744 
       32.28        23.57        26.79        43.10        21.07         0.99 
TCGA-66-2753 TCGA-66-2763 TCGA-66-2765 TCGA-66-2768 TCGA-66-2769 TCGA-66-2771 
        1.02         0.99         2.01         2.01         7.07        19.00 
TCGA-66-2773 TCGA-66-2777 TCGA-66-2778 TCGA-66-2780 TCGA-66-2782 TCGA-66-2783 
        3.02         2.01        19.00        12.03        12.00        24.95 
TCGA-66-2785 TCGA-66-2786 TCGA-66-2788 TCGA-66-2789 TCGA-66-2794 TCGA-68-7756 
        1.94        25.97        22.98         4.04        54.08         6.64 
TCGA-68-7757 TCGA-68-8250 TCGA-77-6844 TCGA-77-7138 TCGA-77-7142 TCGA-77-7335 
        6.94         8.02        75.09        11.18        42.25        70.09 
TCGA-77-7337 TCGA-77-7463 TCGA-77-8007 TCGA-77-8008 TCGA-77-8130 TCGA-77-8131 
      106.95        46.78         6.51        86.76        82.92        12.59 
TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 TCGA-77-8140 TCGA-77-8143 TCGA-77-8144 
       39.09        17.69       104.09        11.54        26.40        27.39 
TCGA-77-8146 TCGA-77-8154 TCGA-77-A5FZ TCGA-77-A5GB TCGA-85-7697 TCGA-85-7843 
       71.77        35.90       126.18        30.81         0.33         1.15 
TCGA-85-8048 TCGA-85-8049 TCGA-85-8071 TCGA-85-8350 TCGA-85-8351 TCGA-85-8353 
        0.85         1.97        14.07         1.97         1.81         1.78 
TCGA-85-8355 TCGA-85-8479 TCGA-85-8481 TCGA-85-8582 TCGA-85-8666 TCGA-85-A4QR 
        0.66         0.72         0.66        13.91        15.58         0.82 
TCGA-85-A50M TCGA-85-A513 TCGA-90-6837 TCGA-90-7766 TCGA-90-7964 TCGA-92-7340 
        0.62         0.79        24.89         9.50        14.07         2.70 
TCGA-92-8063 TCGA-92-8065 TCGA-94-7033 TCGA-94-7557 TCGA-94-7943 TCGA-96-7544 
        4.01         2.27         2.86         0.16        11.70        39.88 
TCGA-96-8169 TCGA-96-8170 TCGA-96-A4JL TCGA-98-7454 TCGA-98-8020 TCGA-L3-A4E7 
        6.18         6.90         6.02         8.42         2.73         1.15 
TCGA-NC-A5HE TCGA-NC-A5HG TCGA-NC-A5HI 
       56.61        50.86        37.32 

subtype1 subtype2 subtype3 
    0.03     0.13     0.03 
subtype1 subtype2 subtype3 
  114.05   141.34   173.79 
subtype1 subtype2 subtype3 
  10.130   15.615   13.910 
[1] "0.0 - 114.0 (10.1)" "0.1 - 141.3 (15.6)" "0.0 - 173.8 (13.9)"
  [1] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [49] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
 [79] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[109] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[127] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[133] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[169] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[181] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[193] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[199] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[217] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[223] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[235] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[247] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[301] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[313] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[319] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[325] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[337] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
[343] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[349] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[355] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[361] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[367] "subtype2" "subtype3" "subtype3" "subtype3"
  [1] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [49] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
 [79] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[109] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[127] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[133] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[169] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[181] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[193] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[199] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[217] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[223] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[235] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[247] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[301] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[313] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[319] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[325] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[337] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
[343] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[349] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[355] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[361] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[367] "subtype2" "subtype3" "subtype3" "subtype3"
  [1] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [49] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
 [79] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[109] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[127] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[133] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[169] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[181] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[193] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[199] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[217] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[223] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[235] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[247] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[301] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[313] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[319] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[325] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[337] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
[343] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[349] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[355] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[361] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[367] "subtype2" "subtype3" "subtype3" "subtype3"
D8V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       0       18       18        0        14        11         12
  subtype2       1       16       40        1        14        22         15
  subtype3       1       35       71        0        22        34         26
          vv
clus       STAGE IIIB STAGE IV
  subtype1          5        2
  subtype2          7        0
  subtype3          7        3
D8V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  26  42   8   5
  subtype2  25  72  14   5
  subtype3  44 127  22   8
D8V4, multiclass
          vv
clus        N0  N1  N2  N3
  subtype1  50  26   5   0
  subtype2  71  36   7   2
  subtype3 130  42  21   3
D8V5, multiclass
          vv
clus        M0  M1  MX
  subtype1  69   2  10
  subtype2 104   0  10
  subtype3 167   3  27
D8V6, multiclass
D8V7, binary
          cls
clus         0   1
  subtype1  27  54
  subtype2  26  90
  subtype3  46 155
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   27   54
  subtype2   26   90
  subtype3   46  155
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       27       26       46
  MALE         54       90      155
D8V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     5
  subtype2                                     4
  subtype3                                     2
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      5
          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                                                          75
  subtype2                                                         111
  subtype3                                                         194
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   2  79
  subtype2   1 115
  subtype3   8 193
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   79
  subtype2    1  115
  subtype3    8  193
     clus
vv    subtype1 subtype2 subtype3
  NO         2        1        8
  YES       79      115      193
D8V11, continuous
D8V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  64   1   0   3
  subtype2 100   4   0   3
  subtype3 158   3   4  12
D8V13, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2       0  1
  subtype1 78 53
  subtype2 62 25
  subtype3 56 32
  subtype4 33 15
subtype1 subtype2 subtype3 subtype4 
     131       87       88       48 
subtype1 subtype2 subtype3 subtype4 
      53       25       32       15 
$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-18-4721 TCGA-18-5592 TCGA-18-5595 TCGA-21-1072 TCGA-21-1078 TCGA-21-1079 
       90.51         3.02        27.16        99.16        15.55        31.69 
TCGA-21-1080 TCGA-21-1083 TCGA-21-5782 TCGA-21-5786 TCGA-21-5787 TCGA-22-0940 
      122.43         8.78        31.63        33.93        10.82        19.99 
TCGA-22-0944 TCGA-22-1011 TCGA-22-1012 TCGA-22-4594 TCGA-22-4595 TCGA-22-4596 
        7.33         1.74        14.10        48.33        24.13         0.56 
TCGA-22-4601 TCGA-22-4604 TCGA-22-4607 TCGA-22-4613 TCGA-22-5471 TCGA-22-5474 
       34.75        13.12        19.30        11.77        31.73        14.60 
TCGA-22-5479 TCGA-22-5480 TCGA-22-5481 TCGA-22-5489 TCGA-22-5492 TCGA-33-4532 
       54.28        71.34        79.20        62.86        16.60         7.63 
TCGA-33-4533 TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 TCGA-33-4582 TCGA-33-4583 
      114.05        97.94        43.10       173.79       103.53       141.34 
TCGA-33-4586 TCGA-33-4589 TCGA-34-2604 TCGA-34-2605 TCGA-34-5241 TCGA-34-7107 
       14.07        10.98        31.50        28.96        14.07         1.08 
TCGA-37-3783 TCGA-37-3789 TCGA-37-3792 TCGA-37-4130 TCGA-37-4133 TCGA-37-4135 
        3.95         0.43         0.39         8.09         7.82         6.81 
TCGA-37-4141 TCGA-37-5819 TCGA-39-5011 TCGA-39-5021 TCGA-39-5029 TCGA-39-5030 
        0.39         3.39        47.80        68.58        24.33         1.94 
TCGA-39-5031 TCGA-39-5034 TCGA-39-5035 TCGA-39-5036 TCGA-39-5039 TCGA-43-2576 
       27.35        36.39        15.58        35.64        17.88        40.21 
TCGA-43-2578 TCGA-43-2581 TCGA-43-3394 TCGA-43-3920 TCGA-43-5668 TCGA-46-3768 
       22.49        38.66        27.02        33.07        11.47         9.96 
TCGA-51-4081 TCGA-56-1622 TCGA-56-5897 TCGA-58-8387 TCGA-60-2695 TCGA-60-2696 
       29.95        28.93         0.10        13.25        21.07         3.58 
TCGA-60-2708 TCGA-60-2711 TCGA-60-2712 TCGA-60-2713 TCGA-60-2714 TCGA-60-2716 
       80.42        41.39         9.01        56.91        50.33        48.49 
TCGA-60-2721 TCGA-60-2723 TCGA-60-2724 TCGA-66-2734 TCGA-66-2737 TCGA-66-2742 
       32.28        35.90        23.57        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-66-2787 TCGA-66-2788 TCGA-66-2789 TCGA-66-2790 TCGA-66-2791 
       25.97        40.01        22.98         4.04        22.98         5.03 
TCGA-66-2792 TCGA-66-2795 TCGA-77-7335 TCGA-77-7465 TCGA-77-8139 TCGA-85-7699 
       30.02         4.01        70.09        15.75       104.09         0.03 
TCGA-85-7843 TCGA-85-8288 TCGA-92-8064 TCGA-94-7033 TCGA-NC-A5HE 
        1.15         1.78         5.26         2.86        56.61 

$subtype2
TCGA-21-1075 TCGA-21-5783 TCGA-22-4591 TCGA-22-4593 TCGA-22-5478 TCGA-22-5491 
       70.13        88.08        20.45        35.08         0.79        56.32 
TCGA-33-4587 TCGA-34-5231 TCGA-34-5927 TCGA-34-5928 TCGA-34-5929 TCGA-39-5027 
       54.44        50.24        30.94        18.12         4.96        60.76 
TCGA-39-5037 TCGA-43-5670 TCGA-43-6143 TCGA-43-7656 TCGA-43-7657 TCGA-43-8115 
       35.70        18.05        12.36         6.97         1.58         6.64 
TCGA-43-8116 TCGA-43-8118 TCGA-43-A56V TCGA-46-6026 TCGA-51-6867 TCGA-52-7809 
        6.35         2.93         5.06        13.87        60.99         5.42 
TCGA-56-7222 TCGA-56-7223 TCGA-56-7579 TCGA-56-7580 TCGA-56-8504 TCGA-56-8625 
        0.43         0.99         1.45         1.32         5.82         2.07 
TCGA-56-8629 TCGA-56-A49D TCGA-56-A4BX TCGA-56-A4BY TCGA-56-A4ZK TCGA-58-8390 
        1.12         0.99         1.51         0.99         0.13        29.95 
TCGA-58-8392 TCGA-58-A46M TCGA-58-A46N TCGA-60-2703 TCGA-60-2719 TCGA-66-2793 
       16.47        23.24        17.72        96.82        42.61        10.06 
TCGA-68-7755 TCGA-77-6842 TCGA-77-6845 TCGA-77-7138 TCGA-77-7139 TCGA-77-7140 
        2.73        29.56        23.28        11.18        89.95        20.78 
TCGA-77-8128 TCGA-77-8136 TCGA-77-8140 TCGA-77-8143 TCGA-77-8144 TCGA-77-8145 
       37.81        39.09        11.54        26.40        27.39         6.97 
TCGA-77-8148 TCGA-77-8150 TCGA-77-8153 TCGA-77-8156 TCGA-77-A5G3 TCGA-85-6560 
        9.63        54.41        55.33         0.33       117.57         0.36 
TCGA-85-7697 TCGA-85-8070 TCGA-85-8276 TCGA-85-8287 TCGA-85-8352 TCGA-85-8354 
        0.33        16.77         0.43         1.45         2.20         2.01 
TCGA-85-8355 TCGA-85-8479 TCGA-85-8580 TCGA-85-8664 TCGA-85-8666 TCGA-85-A4QR 
        0.66         0.72        14.60         0.10        15.58         0.82 
TCGA-85-A53L TCGA-90-7766 TCGA-90-7767 TCGA-90-7769 TCGA-92-7341 TCGA-92-8063 
        0.43         9.50         2.93        11.77         3.48         4.01 
TCGA-92-8065 TCGA-94-7557 TCGA-96-8169 TCGA-96-A4JK TCGA-J1-A4AH TCGA-L3-A524 
        2.27         0.16         6.18         8.98         7.30        14.76 
TCGA-MF-A522 TCGA-NC-A5HG TCGA-NC-A5HI 
        3.02        50.86        37.32 

$subtype3
TCGA-21-5784 TCGA-21-A5DI TCGA-22-4605 TCGA-22-4609 TCGA-22-5472 TCGA-22-5483 
       41.69        32.19        32.02         9.53        64.90        18.84 
TCGA-22-A5C4 TCGA-33-6737 TCGA-33-6738 TCGA-34-2608 TCGA-34-2609 TCGA-34-5232 
        0.95        19.76        26.99        32.84        31.23        67.79 
TCGA-34-5234 TCGA-34-5236 TCGA-34-5239 TCGA-39-5019 TCGA-39-5022 TCGA-39-5024 
       56.38         9.04        23.24        44.71        55.17        70.03 
TCGA-39-5040 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-7658 TCGA-46-6025 
       17.06        24.89         5.42         3.78        66.51        10.65 
TCGA-52-7810 TCGA-52-7811 TCGA-52-7812 TCGA-56-6545 TCGA-56-6546 TCGA-56-7822 
       30.31         8.75        27.45         2.04         1.02         0.03 
TCGA-56-8503 TCGA-56-8622 TCGA-56-8624 TCGA-56-8626 TCGA-56-8628 TCGA-56-A4ZJ 
        1.35         1.78         1.18         0.56         0.53         1.02 
TCGA-58-8386 TCGA-58-8388 TCGA-58-8393 TCGA-58-A46J TCGA-60-2697 TCGA-60-2698 
        0.03        12.43        34.78        64.87        12.23        10.22 
TCGA-60-2704 TCGA-60-2720 TCGA-60-2725 TCGA-68-7756 TCGA-68-7757 TCGA-68-8250 
       37.94         3.16        26.79         6.64         6.94         8.02 
TCGA-68-8251 TCGA-77-6844 TCGA-77-7142 TCGA-77-7337 TCGA-77-7463 TCGA-77-8007 
        3.12        75.09        42.25       106.95        46.78         6.51 
TCGA-77-8008 TCGA-77-8130 TCGA-77-8131 TCGA-77-8133 TCGA-77-8138 TCGA-77-8146 
       86.76        82.92        12.59        53.92        17.69        71.77 
TCGA-77-8154 TCGA-77-A5FZ TCGA-77-A5GB TCGA-85-6561 TCGA-85-7698 TCGA-85-8048 
       35.90       126.18        30.81         0.79         1.61         0.85 
TCGA-85-8049 TCGA-85-8350 TCGA-85-8351 TCGA-85-8353 TCGA-85-8481 TCGA-85-8582 
        1.97         1.97         1.81         1.78         0.66        13.91 
TCGA-85-A50M TCGA-85-A513 TCGA-90-6837 TCGA-90-7964 TCGA-90-A4ED TCGA-92-7340 
        0.62         0.79        24.89        14.07         8.02         2.70 
TCGA-94-7943 TCGA-96-7544 TCGA-96-7545 TCGA-96-8170 TCGA-96-A4JL TCGA-98-7454 
       11.70        39.88        44.15         6.90         6.02         8.42 
TCGA-98-8020 TCGA-98-8022 TCGA-98-8023 TCGA-L3-A4E7 
        2.73         7.33        10.13         1.15 

$subtype4
TCGA-18-4086 TCGA-21-1076 TCGA-21-1077 TCGA-22-5473 TCGA-22-5477 TCGA-22-5482 
        2.79        60.89        34.78        63.52        44.22        11.74 
TCGA-22-5485 TCGA-34-2596 TCGA-34-2600 TCGA-34-5240 TCGA-39-5028 TCGA-43-6770 
       30.08         2.63        61.61        12.00         1.71        10.19 
TCGA-43-A474 TCGA-43-A475 TCGA-51-4079 TCGA-51-4080 TCGA-52-7622 TCGA-56-5898 
       11.61         9.73         0.39         0.39        17.79        18.25 
TCGA-56-7221 TCGA-56-7582 TCGA-56-7730 TCGA-58-8391 TCGA-58-A46K TCGA-58-A46L 
        0.99         0.85         0.20        71.24        34.36        36.59 
TCGA-60-2706 TCGA-60-2709 TCGA-60-2710 TCGA-60-2722 TCGA-66-2727 TCGA-66-2770 
       92.71        49.48        66.51        29.85        16.96        23.01 
TCGA-66-2794 TCGA-66-2800 TCGA-77-6843 TCGA-77-7141 TCGA-77-7338 TCGA-77-8009 
       54.08        49.05        73.08         0.49         0.16        53.95 
TCGA-77-A5GH TCGA-85-6798 TCGA-85-7696 TCGA-85-7844 TCGA-85-7950 TCGA-85-8052 
       23.44         1.12         0.59         1.25         1.97         0.53 
TCGA-85-8071 TCGA-85-8072 TCGA-85-A4CL TCGA-90-A4EE TCGA-98-8021 TCGA-LA-A446 
       14.07         1.18         0.46        10.88        13.58         1.18 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.10     0.03     0.16 
subtype1 subtype2 subtype3 subtype4 
  173.79   117.57   126.18    92.71 
subtype1 subtype2 subtype3 subtype4 
  19.300    9.500   11.965   12.790 
[1] "0.0 - 173.8 (19.3)" "0.1 - 117.6 (9.5)"  "0.0 - 126.2 (12.0)"
[4] "0.2 - 92.7 (12.8)" 
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype4" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype4"
 [49] "subtype1" "subtype4" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype4" "subtype3" "subtype4" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype4" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype4" "subtype4" "subtype2" "subtype1" "subtype3" "subtype2"
[139] "subtype4" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
[151] "subtype3" "subtype3" "subtype4" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype4" "subtype2" "subtype3"
[181] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype4"
[193] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
[205] "subtype1" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[241] "subtype4" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[253] "subtype2" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[259] "subtype3" "subtype1" "subtype3" "subtype3" "subtype4" "subtype2"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype4"
[289] "subtype2" "subtype3" "subtype1" "subtype1" "subtype4" "subtype4"
[295] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
[301] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[307] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[313] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[325] "subtype3" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[331] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[337] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[343] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype3"
[349] "subtype2" "subtype4" "subtype2" "subtype1" "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype4" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype4"
 [49] "subtype1" "subtype4" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype4" "subtype3" "subtype4" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype4" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype4" "subtype4" "subtype2" "subtype1" "subtype3" "subtype2"
[139] "subtype4" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
[151] "subtype3" "subtype3" "subtype4" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype4" "subtype2" "subtype3"
[181] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype4"
[193] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
[205] "subtype1" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[241] "subtype4" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[253] "subtype2" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[259] "subtype3" "subtype1" "subtype3" "subtype3" "subtype4" "subtype2"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype4"
[289] "subtype2" "subtype3" "subtype1" "subtype1" "subtype4" "subtype4"
[295] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
[301] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[307] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[313] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[325] "subtype3" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[331] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[337] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[343] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype3"
[349] "subtype2" "subtype4" "subtype2" "subtype1" "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype4" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype4"
 [49] "subtype1" "subtype4" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype4" "subtype3" "subtype4" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype4" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype4" "subtype4" "subtype2" "subtype1" "subtype3" "subtype2"
[139] "subtype4" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
[151] "subtype3" "subtype3" "subtype4" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype4" "subtype2" "subtype3"
[181] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype4"
[193] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
[205] "subtype1" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[241] "subtype4" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[253] "subtype2" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[259] "subtype3" "subtype1" "subtype3" "subtype3" "subtype4" "subtype2"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype4"
[289] "subtype2" "subtype3" "subtype1" "subtype1" "subtype4" "subtype4"
[295] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
[301] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[307] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[313] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[325] "subtype3" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[331] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[337] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[343] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype3"
[349] "subtype2" "subtype4" "subtype2" "subtype1" "subtype2" "subtype2"
D9V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       0       20       51        1        10        22         22
  subtype2       1       13       27        0        15        20         15
  subtype3       1       20       30        0        16        19         10
  subtype4       0       11       16        0         6         8          5
          vv
clus       STAGE IIIB STAGE IV
  subtype1          9        3
  subtype2          2        0
  subtype3          2        1
  subtype4          4        0
D9V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 27 91 12  8
  subtype2 18 60 14  2
  subtype3 27 57 12  3
  subtype4 15 28  4  4
D9V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 87 31 16  4
  subtype2 55 32  7  0
  subtype3 62 25  7  0
  subtype4 32 15  4  0
D9V5, multiclass
          vv
clus        M0  M1  MX
  subtype1 130   3   3
  subtype2  73   0  20
  subtype3  79   1  19
  subtype4  44   0   4
D9V6, multiclass
D9V7, binary
          cls
clus         0   1
  subtype1  37 101
  subtype2  23  71
  subtype3  22  77
  subtype4  13  38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37  101
  subtype2   23   71
  subtype3   22   77
  subtype4   13   38
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       37       23       22       13
  MALE        101       71       77       38
D9V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     1
  subtype2                                     4
  subtype3                                     1
  subtype4                                     4
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      2
  subtype3                                      3
  subtype4                                      0
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       0
  subtype2                                       1
  subtype3                                       0
  subtype4                                       0
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                         136
  subtype2                                                          87
  subtype3                                                          95
  subtype4                                                          47
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1   4 134
  subtype2   3  91
  subtype3   4  95
  subtype4   0  51
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  134
  subtype2    3   91
  subtype3    4   95
  subtype4    0   51
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         4        3        4        0
  YES      134       91       95       51
D9V11, continuous
D9V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 124   2   2   3
  subtype2  70   2   1   6
  subtype3  75   1   0   5
  subtype4  41   2   0   2
D9V13, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  41  17
  subtype2  74  39
  subtype3 114  69
subtype1 subtype2 subtype3 
      58      113      183 
subtype1 subtype2 subtype3 
      17       39       69 
$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-22-4609 TCGA-22-5471 TCGA-22-5473 TCGA-22-5477 TCGA-22-5482 TCGA-33-4583 
        9.53        31.73        63.52        44.22        11.74       141.34 
TCGA-33-4586 TCGA-34-2596 TCGA-34-2605 TCGA-34-5240 TCGA-39-5022 TCGA-43-6770 
       14.07         2.63        28.96        12.00        55.17        10.19 
TCGA-43-A475 TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-56-7582 TCGA-56-7730 
        9.73         0.39         0.39        29.95         0.85         0.20 
TCGA-56-8622 TCGA-58-8391 TCGA-58-A46K TCGA-58-A46M TCGA-60-2709 TCGA-60-2710 
        1.78        71.24        34.36        23.24        49.48        66.51 
TCGA-60-2722 TCGA-66-2727 TCGA-66-2737 TCGA-66-2758 TCGA-66-2770 TCGA-66-2787 
       29.85        16.96         2.01        20.98        23.01        40.01 
TCGA-66-2791 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-77-6843 
        5.03        54.08         4.01        49.05         2.73        73.08 
TCGA-77-7141 TCGA-77-7338 TCGA-77-8009 TCGA-85-6798 TCGA-85-7696 TCGA-85-7844 
        0.49         0.16        53.95         1.12         0.59         1.25 
TCGA-85-7950 TCGA-85-8052 TCGA-85-8071 TCGA-85-8072 TCGA-85-8352 TCGA-85-A4CL 
        1.97         0.53        14.07         1.18         2.20         0.46 
TCGA-90-7769 TCGA-90-A4EE TCGA-98-8023 TCGA-J1-A4AH 
       11.77        10.88        10.13         7.30 

$subtype2
TCGA-21-1075 TCGA-21-1079 TCGA-21-5783 TCGA-21-A5DI TCGA-22-1012 TCGA-22-4591 
       70.13        31.69        88.08        32.19        14.10        20.45 
TCGA-22-4593 TCGA-22-4595 TCGA-22-4605 TCGA-22-4613 TCGA-22-5478 TCGA-22-5483 
       35.08        24.13        32.02        11.77         0.79        18.84 
TCGA-33-4532 TCGA-33-4533 TCGA-33-4582 TCGA-34-2600 TCGA-34-2604 TCGA-34-2609 
        7.63       114.05       103.53        61.61        31.50        31.23 
TCGA-34-5231 TCGA-34-5927 TCGA-34-5928 TCGA-37-4130 TCGA-37-4133 TCGA-37-4141 
       50.24        30.94        18.12         8.09         7.82         0.39 
TCGA-39-5024 TCGA-39-5027 TCGA-39-5037 TCGA-39-5040 TCGA-43-2576 TCGA-43-2578 
       70.03        60.76        35.70        17.06        40.21        22.49 
TCGA-43-5668 TCGA-43-5670 TCGA-43-6143 TCGA-43-7656 TCGA-43-8115 TCGA-43-8116 
       11.47        18.05        12.36         6.97         6.64         6.35 
TCGA-43-8118 TCGA-43-A56V TCGA-46-6026 TCGA-51-6867 TCGA-52-7622 TCGA-52-7811 
        2.93         5.06        13.87        60.99        17.79         8.75 
TCGA-56-5898 TCGA-56-6546 TCGA-56-7221 TCGA-56-7222 TCGA-56-7223 TCGA-56-7822 
       18.25         1.02         0.99         0.43         0.99         0.03 
TCGA-56-8625 TCGA-56-8626 TCGA-56-8628 TCGA-56-A49D TCGA-56-A4BX TCGA-56-A4BY 
        2.07         0.56         0.53         0.99         1.51         0.99 
TCGA-58-8390 TCGA-58-8392 TCGA-60-2703 TCGA-60-2704 TCGA-60-2706 TCGA-60-2711 
       29.95        16.47        96.82        37.94        92.71        41.39 
TCGA-60-2713 TCGA-60-2719 TCGA-60-2724 TCGA-66-2785 TCGA-66-2792 TCGA-66-2793 
       56.91        42.61        23.57         1.94        30.02        10.06 
TCGA-68-7756 TCGA-68-7757 TCGA-68-8250 TCGA-77-6842 TCGA-77-6844 TCGA-77-7139 
        6.64         6.94         8.02        29.56        75.09        89.95 
TCGA-77-7140 TCGA-77-7463 TCGA-77-8008 TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 
       20.78        46.78        86.76        39.09        17.69       104.09 
TCGA-77-8140 TCGA-77-8143 TCGA-77-8144 TCGA-77-8145 TCGA-77-8148 TCGA-77-8150 
       11.54        26.40        27.39         6.97         9.63        54.41 
TCGA-77-8153 TCGA-77-8156 TCGA-77-A5GH TCGA-85-6560 TCGA-85-7843 TCGA-85-8049 
       55.33         0.33        23.44         0.36         1.15         1.97 
TCGA-85-8070 TCGA-85-8287 TCGA-85-8351 TCGA-85-8354 TCGA-85-8481 TCGA-85-8580 
       16.77         1.45         1.81         2.01         0.66        14.60 
TCGA-85-8582 TCGA-85-8664 TCGA-85-8666 TCGA-85-A4QR TCGA-90-7766 TCGA-90-A4ED 
       13.91         0.10        15.58         0.82         9.50         8.02 
TCGA-92-8063 TCGA-92-8065 TCGA-94-7557 TCGA-96-8169 TCGA-96-A4JK TCGA-98-8020 
        4.01         2.27         0.16         6.18         8.98         2.73 
TCGA-98-8021 TCGA-98-8022 TCGA-LA-A446 TCGA-MF-A522 TCGA-NC-A5HI 
       13.58         7.33         1.18         3.02        37.32 

$subtype3
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-18-5592 
       59.51        28.34        24.92         1.61        43.76         3.02 
TCGA-18-5595 TCGA-21-1078 TCGA-21-1080 TCGA-21-1083 TCGA-21-5782 TCGA-21-5784 
       27.16        15.55       122.43         8.78        31.63        41.69 
TCGA-21-5786 TCGA-21-5787 TCGA-22-0940 TCGA-22-0944 TCGA-22-1011 TCGA-22-4594 
       33.93        10.82        19.99         7.33         1.74        48.33 
TCGA-22-4596 TCGA-22-4601 TCGA-22-4604 TCGA-22-4607 TCGA-22-5472 TCGA-22-5474 
        0.56        34.75        13.12        19.30        64.90        14.60 
TCGA-22-5479 TCGA-22-5480 TCGA-22-5481 TCGA-22-5485 TCGA-22-5489 TCGA-22-5491 
       54.28        71.34        79.20        30.08        62.86        56.32 
TCGA-22-5492 TCGA-22-A5C4 TCGA-33-4538 TCGA-33-4547 TCGA-33-4566 TCGA-33-4587 
       16.60         0.95        97.94        43.10       173.79        54.44 
TCGA-33-4589 TCGA-33-6737 TCGA-33-6738 TCGA-34-2608 TCGA-34-5232 TCGA-34-5234 
       10.98        19.76        26.99        32.84        67.79        56.38 
TCGA-34-5236 TCGA-34-5239 TCGA-34-5241 TCGA-34-5929 TCGA-34-7107 TCGA-37-3783 
        9.04        23.24        14.07         4.96         1.08         3.95 
TCGA-37-3789 TCGA-37-3792 TCGA-37-4135 TCGA-37-5819 TCGA-39-5011 TCGA-39-5019 
        0.43         0.39         6.81         3.39        47.80        44.71 
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-39-5039 TCGA-43-2581 TCGA-43-3394 TCGA-43-3920 
       15.58        35.64        17.88        38.66        27.02        33.07 
TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-7657 TCGA-43-7658 TCGA-43-A474 
       24.89         5.42         3.78         1.58        66.51        11.61 
TCGA-46-3768 TCGA-46-6025 TCGA-52-7809 TCGA-52-7810 TCGA-52-7812 TCGA-56-1622 
        9.96        10.65         5.42        30.31        27.45        28.93 
TCGA-56-5897 TCGA-56-6545 TCGA-56-7579 TCGA-56-7580 TCGA-56-8503 TCGA-56-8504 
        0.10         2.04         1.45         1.32         1.35         5.82 
TCGA-56-8624 TCGA-56-8629 TCGA-56-A4ZJ TCGA-56-A4ZK TCGA-58-8386 TCGA-58-8387 
        1.18         1.12         1.02         0.13         0.03        13.25 
TCGA-58-8388 TCGA-58-8393 TCGA-58-A46J TCGA-58-A46L TCGA-58-A46N TCGA-60-2695 
       12.43        34.78        64.87        36.59        17.72        21.07 
TCGA-60-2696 TCGA-60-2697 TCGA-60-2698 TCGA-60-2708 TCGA-60-2712 TCGA-60-2714 
        3.58        12.23        10.22        80.42         9.01        50.33 
TCGA-60-2716 TCGA-60-2720 TCGA-60-2721 TCGA-60-2723 TCGA-60-2725 TCGA-66-2734 
       48.49         3.16        32.28        35.90        26.79        43.10 
TCGA-66-2742 TCGA-66-2744 TCGA-66-2753 TCGA-66-2754 TCGA-66-2755 TCGA-66-2759 
       21.07         0.99         1.02         2.01         0.92        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-66-2786 
        2.01        12.03         3.98        12.00        24.95        25.97 
TCGA-66-2788 TCGA-66-2789 TCGA-66-2790 TCGA-68-8251 TCGA-77-6845 TCGA-77-7138 
       22.98         4.04        22.98         3.12        23.28        11.18 
TCGA-77-7142 TCGA-77-7335 TCGA-77-7337 TCGA-77-7465 TCGA-77-8007 TCGA-77-8128 
       42.25        70.09       106.95        15.75         6.51        37.81 
TCGA-77-8130 TCGA-77-8131 TCGA-77-8133 TCGA-77-8146 TCGA-77-8154 TCGA-77-A5FZ 
       82.92        12.59        53.92        71.77        35.90       126.18 
TCGA-77-A5G3 TCGA-77-A5GB TCGA-85-6561 TCGA-85-7697 TCGA-85-7698 TCGA-85-7699 
      117.57        30.81         0.79         0.33         1.61         0.03 
TCGA-85-8048 TCGA-85-8276 TCGA-85-8288 TCGA-85-8350 TCGA-85-8353 TCGA-85-8355 
        0.85         0.43         1.78         1.97         1.78         0.66 
TCGA-85-8479 TCGA-85-A50M TCGA-85-A513 TCGA-85-A53L TCGA-90-6837 TCGA-90-7767 
        0.72         0.62         0.79         0.43        24.89         2.93 
TCGA-90-7964 TCGA-92-7340 TCGA-92-7341 TCGA-92-8064 TCGA-94-7033 TCGA-94-7943 
       14.07         2.70         3.48         5.26         2.86        11.70 
TCGA-96-7544 TCGA-96-7545 TCGA-96-8170 TCGA-96-A4JL TCGA-98-7454 TCGA-L3-A4E7 
       39.88        44.15         6.90         6.02         8.42         1.15 
TCGA-L3-A524 TCGA-NC-A5HE TCGA-NC-A5HG 
       14.76        56.61        50.86 

subtype1 subtype2 subtype3 
    0.16     0.03     0.03 
subtype1 subtype2 subtype3 
  141.34   114.05   173.79 
subtype1 subtype2 subtype3 
  11.885   13.910   13.250 
[1] "0.2 - 141.3 (11.9)" "0.0 - 114.0 (13.9)" "0.0 - 173.8 (13.2)"
  [1] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [49] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [55] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[175] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[187] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[205] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[211] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[235] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[247] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[259] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[289] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[295] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[301] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[307] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[331] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[337] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[343] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[349] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [1] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [49] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [55] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[175] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[187] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[205] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[211] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[235] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[247] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[259] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[289] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[295] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[301] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[307] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[331] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[337] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[343] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[349] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [1] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [49] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [55] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[175] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[187] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[205] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[211] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[235] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[247] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[259] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[289] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[295] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[301] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[307] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[331] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[337] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[343] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[349] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
D10V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       0        9       21        0         7        12          6
  subtype2       2       25       35        0        12        20         20
  subtype3       0       30       68        1        28        37         26
          vv
clus       STAGE IIIB STAGE IV
  subtype1          7        0
  subtype2          3        0
  subtype3          7        4
D10V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  14  37   6   5
  subtype2  32  69  14   4
  subtype3  41 130  22   8
D10V4, multiclass
          vv
clus        N0  N1  N2  N3
  subtype1  34  23   4   1
  subtype2  75  34  10   0
  subtype3 127  46  20   3
D10V5, multiclass
          vv
clus        M0  M1  MX
  subtype1  55   0   5
  subtype2  95   0  21
  subtype3 176   4  20
D10V6, multiclass
D10V7, binary
          cls
clus         0   1
  subtype1  12  50
  subtype2  32  87
  subtype3  51 150
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   12   50
  subtype2   32   87
  subtype3   51  150
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       12       32       51
  MALE         50       87      150
D10V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     3
  subtype2                                     1
  subtype3                                     6
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      0
  subtype2                                      1
  subtype3                                      5
          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                                                          59
  subtype2                                                         117
  subtype3                                                         189
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   1  61
  subtype2   9 110
  subtype3   1 200
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   61
  subtype2    9  110
  subtype3    1  200
     clus
vv    subtype1 subtype2 subtype3
  NO         1        9        1
  YES       61      110      200
D10V11, continuous
D10V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  50   3   1   2
  subtype2  91   1   1   5
  subtype3 169   3   1   9
D10V13, multiclass

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2       0  1
  subtype1 50 27
  subtype2 52 22
  subtype3 51 22
subtype1 subtype2 subtype3 
      77       74       73 
subtype1 subtype2 subtype3 
      27       22       22 
$subtype1
TCGA-18-5592 TCGA-18-5595 TCGA-21-5783 TCGA-21-5787 TCGA-22-5473 TCGA-22-5474 
        3.02        27.16        88.08        10.82        63.52        14.60 
TCGA-22-5481 TCGA-22-5482 TCGA-22-5485 TCGA-22-5491 TCGA-33-4587 TCGA-34-5231 
       79.20        11.74        30.08        56.32        54.44        50.24 
TCGA-34-5929 TCGA-37-5819 TCGA-43-5668 TCGA-43-5670 TCGA-43-6143 TCGA-43-7657 
        4.96         3.39        11.47        18.05        12.36         1.58 
TCGA-43-A474 TCGA-46-6025 TCGA-51-6867 TCGA-52-7809 TCGA-56-7222 TCGA-56-7223 
       11.61        10.65        60.99         5.42         0.43         0.99 
TCGA-56-7579 TCGA-56-7580 TCGA-56-7582 TCGA-56-8504 TCGA-56-8629 TCGA-56-A4BX 
        1.45         1.32         0.85         5.82         1.12         1.51 
TCGA-56-A4ZK TCGA-58-8387 TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K TCGA-58-A46M 
        0.13        13.25        71.24        16.47        34.36        23.24 
TCGA-58-A46N TCGA-60-2703 TCGA-68-7755 TCGA-77-6842 TCGA-77-6843 TCGA-77-6845 
       17.72        96.82         2.73        29.56        73.08        23.28 
TCGA-77-7139 TCGA-77-7140 TCGA-77-7465 TCGA-77-8007 TCGA-77-8009 TCGA-77-8140 
       89.95        20.78        15.75         6.51        53.95        11.54 
TCGA-77-8143 TCGA-77-8148 TCGA-77-8150 TCGA-77-8153 TCGA-77-8154 TCGA-77-8156 
       26.40         9.63        54.41        55.33        35.90         0.33 
TCGA-77-A5G3 TCGA-85-6798 TCGA-85-7699 TCGA-85-7843 TCGA-85-8070 TCGA-85-8071 
      117.57         1.12         0.03         1.15        16.77        14.07 
TCGA-85-8354 TCGA-85-8580 TCGA-85-8664 TCGA-85-A4QR TCGA-90-7767 TCGA-90-7769 
        2.01        14.60         0.10         0.82         2.93        11.77 
TCGA-92-7341 TCGA-92-8063 TCGA-92-8064 TCGA-92-8065 TCGA-96-A4JK TCGA-J1-A4AH 
        3.48         4.01         5.26         2.27         8.98         7.30 
TCGA-L3-A524 TCGA-MF-A522 TCGA-NC-A5HE TCGA-NC-A5HG TCGA-NC-A5HI 
       14.76         3.02        56.61        50.86        37.32 

$subtype2
TCGA-21-5782 TCGA-21-5786 TCGA-21-A5DI TCGA-22-4593 TCGA-22-5478 TCGA-22-5479 
       31.63        33.93        32.19        35.08         0.79        54.28 
TCGA-22-5483 TCGA-22-A5C4 TCGA-34-5236 TCGA-34-5239 TCGA-34-5927 TCGA-34-5928 
       18.84         0.95         9.04        23.24        30.94        18.12 
TCGA-34-7107 TCGA-37-3783 TCGA-39-5024 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 
        1.08         3.95        70.03        24.89         5.42         3.78 
TCGA-43-7656 TCGA-43-8115 TCGA-43-A56V TCGA-52-7810 TCGA-52-7811 TCGA-56-5897 
        6.97         6.64         5.06        30.31         8.75         0.10 
TCGA-56-6545 TCGA-56-7822 TCGA-56-8503 TCGA-56-8622 TCGA-56-8625 TCGA-56-8628 
        2.04         0.03         1.35         1.78         2.07         0.53 
TCGA-56-A49D TCGA-58-8390 TCGA-68-7756 TCGA-68-7757 TCGA-68-8251 TCGA-77-6844 
        0.99        29.95         6.64         6.94         3.12        75.09 
TCGA-77-7138 TCGA-77-7335 TCGA-77-7337 TCGA-77-8008 TCGA-77-8128 TCGA-77-8130 
       11.18        70.09       106.95        86.76        37.81        82.92 
TCGA-77-8131 TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 TCGA-77-8144 TCGA-77-8145 
       12.59        39.09        17.69       104.09        27.39         6.97 
TCGA-77-A5GB TCGA-85-6560 TCGA-85-6561 TCGA-85-7696 TCGA-85-7697 TCGA-85-7698 
       30.81         0.36         0.79         0.59         0.33         1.61 
TCGA-85-7950 TCGA-85-8049 TCGA-85-8276 TCGA-85-8287 TCGA-85-8288 TCGA-85-8479 
        1.97         1.97         0.43         1.45         1.78         0.72 
TCGA-85-8481 TCGA-85-8582 TCGA-85-8666 TCGA-85-A50M TCGA-85-A53L TCGA-90-7766 
        0.66        13.91        15.58         0.62         0.43         9.50 
TCGA-92-7340 TCGA-94-7033 TCGA-94-7557 TCGA-96-7544 TCGA-96-8169 TCGA-98-7454 
        2.70         2.86         0.16        39.88         6.18         8.42 
TCGA-98-8020 TCGA-98-8023 
        2.73        10.13 

$subtype3
TCGA-21-5784 TCGA-22-4605 TCGA-22-4609 TCGA-22-5471 TCGA-22-5472 TCGA-22-5477 
       41.69        32.02         9.53        31.73        64.90        44.22 
TCGA-22-5480 TCGA-22-5489 TCGA-22-5492 TCGA-33-6737 TCGA-33-6738 TCGA-34-5232 
       71.34        62.86        16.60        19.76        26.99        67.79 
TCGA-34-5234 TCGA-39-5019 TCGA-39-5022 TCGA-39-5027 TCGA-39-5040 TCGA-43-6770 
       56.38        44.71        55.17        60.76        17.06        10.19 
TCGA-43-7658 TCGA-43-8116 TCGA-43-8118 TCGA-43-A475 TCGA-46-6026 TCGA-52-7622 
       66.51         6.35         2.93         9.73        13.87        17.79 
TCGA-52-7812 TCGA-56-5898 TCGA-56-6546 TCGA-56-7221 TCGA-56-7730 TCGA-56-8624 
       27.45        18.25         1.02         0.99         0.20         1.18 
TCGA-56-8626 TCGA-56-A4BY TCGA-56-A4ZJ TCGA-58-8386 TCGA-58-8388 TCGA-58-8393 
        0.56         0.99         1.02         0.03        12.43        34.78 
TCGA-58-A46J TCGA-58-A46L TCGA-60-2697 TCGA-60-2704 TCGA-60-2709 TCGA-68-8250 
       64.87        36.59        12.23        37.94        49.48         8.02 
TCGA-77-7141 TCGA-77-7142 TCGA-77-7338 TCGA-77-7463 TCGA-77-8133 TCGA-77-8146 
        0.49        42.25         0.16        46.78        53.92        71.77 
TCGA-77-A5FZ TCGA-77-A5GH TCGA-85-7844 TCGA-85-8048 TCGA-85-8052 TCGA-85-8072 
      126.18        23.44         1.25         0.85         0.53         1.18 
TCGA-85-8350 TCGA-85-8351 TCGA-85-8352 TCGA-85-8353 TCGA-85-8355 TCGA-85-A4CL 
        1.97         1.81         2.20         1.78         0.66         0.46 
TCGA-85-A513 TCGA-90-6837 TCGA-90-7964 TCGA-90-A4ED TCGA-90-A4EE TCGA-94-7943 
        0.79        24.89        14.07         8.02        10.88        11.70 
TCGA-96-7545 TCGA-96-8170 TCGA-96-A4JL TCGA-98-8021 TCGA-98-8022 TCGA-L3-A4E7 
       44.15         6.90         6.02        13.58         7.33         1.15 
TCGA-LA-A446 
        1.18 

subtype1 subtype2 subtype3 
    0.03     0.03     0.03 
subtype1 subtype2 subtype3 
  117.57   106.95   126.18 
subtype1 subtype2 subtype3 
   11.77     6.79    12.43 
[1] "0.0 - 117.6 (11.8)" "0.0 - 107.0 (6.8)"  "0.0 - 126.2 (12.4)"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [43] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[127] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[163] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[175] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[187] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[193] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[205] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[217] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[223] "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [43] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[127] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[163] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[175] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[187] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[193] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[205] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[217] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[223] "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
  [7] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [43] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[127] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[163] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[175] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[187] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[193] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[205] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[217] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[223] "subtype1" "subtype1"
D11V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1        8       25        0        15        21         13
  subtype2       1       12       25        1        14        16         12
  subtype3       0       26       21        0        12         7          8
          vv
clus       STAGE IIIB STAGE IV
  subtype1          1        0
  subtype2          3        0
  subtype3          1        1
D11V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 13 59 12  1
  subtype2 18 49 13  4
  subtype3 30 39  7  1
D11V4, multiclass
          vv
clus       N0 N1 N2
  subtype1 47 31  7
  subtype2 53 22  7
  subtype3 54 13  7
D11V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 69  0 15
  subtype2 68  0 16
  subtype3 60  1 15
D11V6, multiclass
D11V7, binary
          cls
clus        0  1
  subtype1 19 66
  subtype2 19 65
  subtype3 18 59
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   19   66
  subtype2   19   65
  subtype3   18   59
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       19       19       18
  MALE         66       65       59
D11V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     5
  subtype2                                     0
  subtype3                                     2
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      1
  subtype2                                      2
  subtype3                                      2
          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                                                          78
  subtype2                                                          82
  subtype3                                                          73
D11V9, multiclass
D11V10, binary
          cls
clus        0  1
  subtype1  3 82
  subtype2  2 82
  subtype3  4 73
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   82
  subtype2    2   82
  subtype3    4   73
     clus
vv    subtype1 subtype2 subtype3
  NO         3        2        4
  YES       82       82       73
D11V11, continuous
D11V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 70  1  0  5
  subtype2 60  2  0  5
  subtype3 56  2  2  3
D11V13, multiclass

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2       0  1
  subtype1 88 39
  subtype2 65 32
subtype1 subtype2 
     127       97 
subtype1 subtype2 
      39       32 
$subtype1
TCGA-21-5782 TCGA-21-5784 TCGA-21-5786 TCGA-21-A5DI TCGA-22-4605 TCGA-22-4609 
       31.63        41.69        33.93        32.19        32.02         9.53 
TCGA-22-5472 TCGA-22-5479 TCGA-22-5480 TCGA-22-5489 TCGA-22-A5C4 TCGA-33-6737 
       64.90        54.28        71.34        62.86         0.95        19.76 
TCGA-33-6738 TCGA-34-5232 TCGA-34-5234 TCGA-34-5236 TCGA-34-5239 TCGA-34-5927 
       26.99        67.79        56.38         9.04        23.24        30.94 
TCGA-34-5928 TCGA-34-5929 TCGA-34-7107 TCGA-37-3783 TCGA-39-5019 TCGA-39-5040 
       18.12         4.96         1.08         3.95        44.71        17.06 
TCGA-43-5670 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-7656 TCGA-43-7657 
       18.05        24.89         5.42         3.78         6.97         1.58 
TCGA-43-A56V TCGA-46-6025 TCGA-52-7622 TCGA-52-7809 TCGA-52-7810 TCGA-52-7811 
        5.06        10.65        17.79         5.42        30.31         8.75 
TCGA-52-7812 TCGA-56-5897 TCGA-56-6546 TCGA-56-7223 TCGA-56-7580 TCGA-56-7822 
       27.45         0.10         1.02         0.99         1.32         0.03 
TCGA-56-8503 TCGA-56-8504 TCGA-56-8622 TCGA-56-8624 TCGA-56-8625 TCGA-56-8626 
        1.35         5.82         1.78         1.18         2.07         0.56 
TCGA-56-8628 TCGA-56-8629 TCGA-56-A49D TCGA-56-A4ZJ TCGA-58-8386 TCGA-58-8388 
        0.53         1.12         0.99         1.02         0.03        12.43 
TCGA-58-8393 TCGA-58-A46J TCGA-60-2697 TCGA-60-2704 TCGA-68-7756 TCGA-68-7757 
       34.78        64.87        12.23        37.94         6.64         6.94 
TCGA-68-8250 TCGA-68-8251 TCGA-77-6844 TCGA-77-7138 TCGA-77-7142 TCGA-77-7335 
        8.02         3.12        75.09        11.18        42.25        70.09 
TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 TCGA-77-8007 TCGA-77-8008 TCGA-77-8128 
      106.95        46.78        15.75         6.51        86.76        37.81 
TCGA-77-8130 TCGA-77-8131 TCGA-77-8133 TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 
       82.92        12.59        53.92        39.09        17.69       104.09 
TCGA-77-8144 TCGA-77-8145 TCGA-77-8146 TCGA-77-A5FZ TCGA-77-A5GB TCGA-77-A5GH 
       27.39         6.97        71.77       126.18        30.81        23.44 
TCGA-85-6560 TCGA-85-6561 TCGA-85-7696 TCGA-85-7697 TCGA-85-7698 TCGA-85-7950 
        0.36         0.79         0.59         0.33         1.61         1.97 
TCGA-85-8048 TCGA-85-8049 TCGA-85-8276 TCGA-85-8288 TCGA-85-8350 TCGA-85-8351 
        0.85         1.97         0.43         1.78         1.97         1.81 
TCGA-85-8353 TCGA-85-8479 TCGA-85-8481 TCGA-85-8580 TCGA-85-8582 TCGA-85-A50M 
        1.78         0.72         0.66        14.60        13.91         0.62 
TCGA-85-A513 TCGA-90-6837 TCGA-90-7766 TCGA-90-7767 TCGA-90-7964 TCGA-90-A4ED 
        0.79        24.89         9.50         2.93        14.07         8.02 
TCGA-90-A4EE TCGA-92-7340 TCGA-92-7341 TCGA-92-8064 TCGA-94-7033 TCGA-94-7557 
       10.88         2.70         3.48         5.26         2.86         0.16 
TCGA-94-7943 TCGA-96-7544 TCGA-96-7545 TCGA-96-8169 TCGA-96-8170 TCGA-96-A4JL 
       11.70        39.88        44.15         6.18         6.90         6.02 
TCGA-98-7454 TCGA-98-8020 TCGA-98-8021 TCGA-98-8022 TCGA-98-8023 TCGA-L3-A4E7 
        8.42         2.73        13.58         7.33        10.13         1.15 
TCGA-L3-A524 
       14.76 

$subtype2
TCGA-18-5592 TCGA-18-5595 TCGA-21-5783 TCGA-21-5787 TCGA-22-4593 TCGA-22-5471 
        3.02        27.16        88.08        10.82        35.08        31.73 
TCGA-22-5473 TCGA-22-5474 TCGA-22-5477 TCGA-22-5478 TCGA-22-5481 TCGA-22-5482 
       63.52        14.60        44.22         0.79        79.20        11.74 
TCGA-22-5483 TCGA-22-5485 TCGA-22-5491 TCGA-22-5492 TCGA-33-4587 TCGA-34-5231 
       18.84        30.08        56.32        16.60        54.44        50.24 
TCGA-37-5819 TCGA-39-5022 TCGA-39-5024 TCGA-39-5027 TCGA-43-5668 TCGA-43-6143 
        3.39        55.17        70.03        60.76        11.47        12.36 
TCGA-43-6770 TCGA-43-7658 TCGA-43-8115 TCGA-43-8116 TCGA-43-8118 TCGA-43-A474 
       10.19        66.51         6.64         6.35         2.93        11.61 
TCGA-43-A475 TCGA-46-6026 TCGA-51-6867 TCGA-56-5898 TCGA-56-6545 TCGA-56-7221 
        9.73        13.87        60.99        18.25         2.04         0.99 
TCGA-56-7222 TCGA-56-7579 TCGA-56-7582 TCGA-56-7730 TCGA-56-A4BX TCGA-56-A4BY 
        0.43         1.45         0.85         0.20         1.51         0.99 
TCGA-56-A4ZK TCGA-58-8387 TCGA-58-8390 TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K 
        0.13        13.25        29.95        71.24        16.47        34.36 
TCGA-58-A46L TCGA-58-A46M TCGA-58-A46N TCGA-60-2703 TCGA-60-2709 TCGA-68-7755 
       36.59        23.24        17.72        96.82        49.48         2.73 
TCGA-77-6842 TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 TCGA-77-7140 TCGA-77-7141 
       29.56        73.08        23.28        89.95        20.78         0.49 
TCGA-77-7338 TCGA-77-8009 TCGA-77-8140 TCGA-77-8143 TCGA-77-8148 TCGA-77-8150 
        0.16        53.95        11.54        26.40         9.63        54.41 
TCGA-77-8153 TCGA-77-8154 TCGA-77-8156 TCGA-77-A5G3 TCGA-85-6798 TCGA-85-7699 
       55.33        35.90         0.33       117.57         1.12         0.03 
TCGA-85-7843 TCGA-85-7844 TCGA-85-8052 TCGA-85-8070 TCGA-85-8071 TCGA-85-8072 
        1.15         1.25         0.53        16.77        14.07         1.18 
TCGA-85-8287 TCGA-85-8352 TCGA-85-8354 TCGA-85-8355 TCGA-85-8664 TCGA-85-8666 
        1.45         2.20         2.01         0.66         0.10        15.58 
TCGA-85-A4CL TCGA-85-A4QR TCGA-85-A53L TCGA-90-7769 TCGA-92-8063 TCGA-92-8065 
        0.46         0.82         0.43        11.77         4.01         2.27 
TCGA-96-A4JK TCGA-J1-A4AH TCGA-LA-A446 TCGA-MF-A522 TCGA-NC-A5HE TCGA-NC-A5HG 
        8.98         7.30         1.18         3.02        56.61        50.86 
TCGA-NC-A5HI 
       37.32 

subtype1 subtype2 
    0.03     0.03 
subtype1 subtype2 
  126.18   117.57 
subtype1 subtype2 
    8.75    12.36 
[1] "0.0 - 126.2 (8.8)"  "0.0 - 117.6 (12.4)"
  [1] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
  [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [25] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [73] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [97] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[175] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype2"
  [1] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
  [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [25] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [73] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [97] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[175] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype2"
  [1] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
  [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [25] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [73] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [97] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[175] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype2"
[1] "hr=" "1.1"
D12V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1       30       42        1        23        23         16
  subtype2       1       16       29        0        18        21         17
          vv
clus       STAGE IIIB STAGE IV
  subtype1          4        1
  subtype2          1        0
D12V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 39 78 19  5
  subtype2 22 69 13  1
D12V4, multiclass
          vv
clus       N0 N1 N2
  subtype1 91 34 11
  subtype2 63 32 10
D12V5, multiclass
          vv
clus        M0  M1  MX
  subtype1 107   1  33
  subtype2  90   0  13
D12V6, multiclass
D12V7, binary
          cls
clus         0   1
  subtype1  34 107
  subtype2  22  83
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   34  107
  subtype2   22   83
        clus
vv       subtype1 subtype2
  FEMALE       34       22
  MALE        107       83
D12V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     5
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      4
  subtype2                                      1
          vv
clus       LUNG SMALL CELL SQUAMOUS CELL CARCINOMA
  subtype1                                       0
  subtype2                                       1
          vv
clus       LUNG SQUAMOUS CELL CARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                         135
  subtype2                                                          98
D12V9, multiclass
D12V10, binary
          cls
clus         0   1
  subtype1   4 137
  subtype2   5 100
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  137
  subtype2    5  100
     clus
vv    subtype1 subtype2
  NO         4        5
  YES      137      100
D12V11, continuous
D12V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 102   2   0   7
  subtype2  84   3   2   6
D12V13, multiclass
> q(save="no")
