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

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/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/10441/12/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/LUSC-TP/4470536/LUSC-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/LUSC-TP/4397342/LUSC-TP.clin.merged.picked.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/GDAC_clinicalDataPicker/LUSC-TP/4397342/LUSC-TP.clin.merged.picked.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/LUSC-TP/4470536/LUSC-TP.mergedcluster.txt"

nPatients in clinical file=394, in cluster file=493, common to both=394
[1]  12 394
[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 
158 129 104 
  1   2   3 
158 129 104 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
106  82  72 
  1   2   3 
106  82  72 
[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 
 93 113 114  66 
  1   2   3   4 
 93 113 114  66 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 80 112 194 
  1   2   3 
 80 112 194 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3   4 
138  89  93  48 
  1   2   3   4 
138  89  93  48 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 59 116 193 
  1   2   3 
 59 116 193 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3 
80 80 72 
 1  2  3 
80 80 72 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2 
133  99 
  1   2 
133  99 
[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] "KARNOFSKYPERFORMANCESCORE"             
[15] "HISTOLOGICALTYPE"                      
[16] "RADIATIONS.RADIATION.REGIMENINDICATION"
[17] "NUMBERPACKYEARSSMOKED"                 
[18] "YEAROFTOBACCOSMOKINGONSET"             
[19] "COMPLETENESS.OF.RESECTION"             
[20] "BATCHNUMBER"                           

Input Data has 20 rows and 394 columns.

[1] "Batch" "20"   
[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          908          661          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         1575          994           NA          329 
TCGA-34-5240 TCGA-34-5241 TCGA-34-5927 TCGA-34-5928 TCGA-34-5929 TCGA-34-7107 
         235          428          698          168           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          748          684          399 
TCGA-43-3394 TCGA-43-3920 TCGA-43-5668 TCGA-43-5670 TCGA-43-6143 TCGA-43-6647 
         822          357          349          549          376          379 
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-46-3765 TCGA-46-3766 TCGA-46-3767 
         202          193           NA           NA           NA           NA 
TCGA-46-3768 TCGA-46-3769 TCGA-46-6025 TCGA-46-6026 TCGA-51-4079 TCGA-51-4080 
          NA           NA          324          422           12           12 
TCGA-51-4081 TCGA-51-6867 TCGA-52-7622 TCGA-52-7809 TCGA-52-7810 TCGA-52-7811 
         911           NA          541           NA          922           NA 
TCGA-52-7812 TCGA-56-1622 TCGA-56-5897 TCGA-56-5898 TCGA-56-6545 TCGA-56-6546 
          NA          880            3           NA           62           31 
TCGA-56-7221 TCGA-56-7222 TCGA-56-7223 TCGA-56-7579 TCGA-56-7580 TCGA-56-7582 
          30           13           30           44           40           26 
TCGA-56-7730 TCGA-56-7731 TCGA-56-7822 TCGA-56-8503 TCGA-56-8504 TCGA-56-8622 
           6           NA            1           41          177           54 
TCGA-56-8624 TCGA-56-8625 TCGA-56-8626 TCGA-56-8628 TCGA-56-8629 TCGA-56-A49D 
          36           63           17           16           34           30 
TCGA-56-A4BW TCGA-56-A4BX TCGA-56-A4BY TCGA-56-A4ZJ TCGA-56-A4ZK TCGA-56-A5DR 
          NA           46           30           31            4           NA 
TCGA-56-A5DS TCGA-58-8386 TCGA-58-8387 TCGA-58-8388 TCGA-58-8390 TCGA-58-8391 
           8           NA           NA          378          272         1341 
TCGA-58-8392 TCGA-58-8393 TCGA-58-A46K TCGA-58-A46L TCGA-58-A46N TCGA-60-2695 
          NA           20           NA         1113          539          641 
TCGA-60-2696 TCGA-60-2697 TCGA-60-2698 TCGA-60-2703 TCGA-60-2704 TCGA-60-2706 
         109           NA          311           NA           NA         2820 
TCGA-60-2707 TCGA-60-2708 TCGA-60-2709 TCGA-60-2710 TCGA-60-2711 TCGA-60-2712 
         660         2446         1505         2023         1259          274 
TCGA-60-2713 TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 
        1731         1531         1075         1475         1296           96 
TCGA-60-2721 TCGA-60-2722 TCGA-60-2723 TCGA-60-2724 TCGA-60-2725 TCGA-60-2726 
         982          908         1092          717          815          358 
TCGA-63-5128 TCGA-63-5131 TCGA-63-6202 TCGA-63-7020 TCGA-63-7021 TCGA-63-7022 
          NA           NA           NA           NA           NA           NA 
TCGA-63-7023 TCGA-66-2727 TCGA-66-2734 TCGA-66-2737 TCGA-66-2742 TCGA-66-2744 
          NA           NA         1311           61          641           30 
TCGA-66-2753 TCGA-66-2754 TCGA-66-2755 TCGA-66-2756 TCGA-66-2757 TCGA-66-2758 
          31           61           28           30           30          638 
TCGA-66-2759 TCGA-66-2763 TCGA-66-2765 TCGA-66-2766 TCGA-66-2767 TCGA-66-2768 
         761           30           61           31           61           61 
TCGA-66-2769 TCGA-66-2770 TCGA-66-2771 TCGA-66-2773 TCGA-66-2777 TCGA-66-2778 
          NA          700          578           NA           61          578 
TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 TCGA-66-2786 
          NA          121           NA          759           59          790 
TCGA-66-2787 TCGA-66-2788 TCGA-66-2789 TCGA-66-2790 TCGA-66-2791 TCGA-66-2792 
        1217          699           NA          699           NA          913 
TCGA-66-2793 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-68-7756 
          NA         1645          122         1492           83          202 
TCGA-68-7757 TCGA-68-8250 TCGA-68-8251 TCGA-70-6722 TCGA-70-6723 TCGA-77-6842 
         211          244           95           NA           NA           NA 
TCGA-77-6843 TCGA-77-6844 TCGA-77-6845 TCGA-77-7138 TCGA-77-7139 TCGA-77-7140 
          NA           NA           NA           NA         2736           NA 
TCGA-77-7141 TCGA-77-7142 TCGA-77-7335 TCGA-77-7337 TCGA-77-7338 TCGA-77-7463 
          15         1285           NA           NA           NA           NA 
TCGA-77-7465 TCGA-77-8007 TCGA-77-8008 TCGA-77-8009 TCGA-77-8128 TCGA-77-8130 
         479           NA           NA         1641           NA         2522 
TCGA-77-8131 TCGA-77-8133 TCGA-77-8136 TCGA-77-8138 TCGA-77-8139 TCGA-77-8140 
          NA           NA           NA           NA         3166           NA 
TCGA-77-8143 TCGA-77-8144 TCGA-77-8145 TCGA-77-8146 TCGA-77-8148 TCGA-77-8150 
          NA          833           NA         2183          293           NA 
TCGA-77-8153 TCGA-77-8154 TCGA-77-8156 TCGA-77-A5GB TCGA-77-A5GH TCGA-79-5596 
        1683         1092           10           NA          713           NA 
TCGA-85-6175 TCGA-85-6560 TCGA-85-6561 TCGA-85-6798 TCGA-85-7696 TCGA-85-7697 
          NA           11           24           34           18           10 
TCGA-85-7698 TCGA-85-7699 TCGA-85-7710 TCGA-85-7843 TCGA-85-7844 TCGA-85-7950 
          49            1           NA           35           38           60 
TCGA-85-8048 TCGA-85-8049 TCGA-85-8052 TCGA-85-8070 TCGA-85-8071 TCGA-85-8072 
          26           60           16           43           14           36 
TCGA-85-8276 TCGA-85-8277 TCGA-85-8287 TCGA-85-8288 TCGA-85-8350 TCGA-85-8351 
          13           11           44           54           60           55 
TCGA-85-8352 TCGA-85-8353 TCGA-85-8354 TCGA-85-8355 TCGA-85-8479 TCGA-85-8481 
          67           54           61           20           22           20 
TCGA-85-8580 TCGA-85-8582 TCGA-85-8584 TCGA-85-8664 TCGA-85-8666 TCGA-85-A4CL 
          27            4           NA            3           14           14 
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           47           89           18 
TCGA-90-7964 TCGA-90-A4ED TCGA-90-A4EE TCGA-92-7340 TCGA-92-7341 TCGA-92-8063 
         100          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          143         1213 
TCGA-96-7545 TCGA-96-8169 TCGA-96-8170 TCGA-98-7454 TCGA-98-8020 TCGA-98-8021 
        1343          188          210          256           NA          413 
TCGA-98-8022 TCGA-98-8023 TCGA-J1-A4AH TCGA-L3-A4E7 TCGA-L3-A524 TCGA-LA-A446 
         223          308          222           35          449           36 
TCGA-MF-A522 TCGA-NC-A5HE TCGA-NC-A5HG TCGA-NC-A5HI 
          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=121,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=244,	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=132,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 14:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 15:'HISTOLOGICAL.TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBERPACKYEARSSMOKED':	nDistinctValues=93,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=54,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 19:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 20:'BATCH.NUMBER':	nDistinctValues=25,	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 394 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 
 94 240  42  18 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
 94 240  42  18 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T1  T2  T3  T4 
 94 240  42  18 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
 94 240  42  18 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
248 103  33   5 
[1] "table(vv)"
vv
 N0  N1  N2  N3 
248 103  33   5 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2  N3 
248 103  33   5 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 N0  N1  N2  N3 
248 103  33   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=93, 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 25 16
  subtype2 31 19
  subtype3 13 17
  subtype4 16 11
subtype1 subtype2 subtype3 subtype4 
      41       50       30       27 
subtype1 subtype2 subtype3 subtype4 
      16       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        11.74        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         7.73        74.07        68.58        35.64 
TCGA-39-5037 TCGA-43-3394 TCGA-46-3768 TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 
       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        24.59        13.12         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 
  19.000   29.405   17.460   11.770 
[1] "0.4 - 122.4 (19.0)" "0.4 - 99.2 (29.4)"  "0.4 - 173.8 (17.5)"
[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 25 25
subtype1 subtype2 subtype3 subtype4 
      22       54       22       50 
subtype1 subtype2 subtype3 subtype4 
       7       21       10       25 
$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        24.59        22.49        13.12        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         7.73         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        11.74         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 
  14.350   27.680   19.725   14.500 
[1] "0.4 - 92.7 (14.3)"  "0.4 - 99.2 (27.7)"  "1.0 - 122.4 (19.7)"
[4] "0.4 - 173.8 (14.5)"
  [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 85 56
  subtype2 85 36
  subtype3 65 30
subtype1 subtype2 subtype3 
     141      121       95 
subtype1 subtype2 subtype3 
      56       36       30 
$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        29.85        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-22-5489 TCGA-33-4566 TCGA-33-4583 
       54.28        71.34        79.20        62.86       173.79       141.34 
TCGA-33-4587 TCGA-33-4589 TCGA-33-6737 TCGA-34-2604 TCGA-34-2608 TCGA-34-5232 
       54.44        10.98        19.76        31.50        32.84        51.78 
TCGA-34-5234 TCGA-34-5236 TCGA-34-5239 TCGA-34-5241 TCGA-37-3783 TCGA-37-3792 
       32.68         9.04        10.82        14.07         3.95         0.39 
TCGA-37-4129 TCGA-37-4132 TCGA-39-5011 TCGA-39-5021 TCGA-39-5022 TCGA-39-5024 
        6.54         7.46        47.80        68.58        55.17        70.03 
TCGA-39-5028 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-39-5036 TCGA-39-5039 
        1.71         1.94        36.39        15.58        35.64        17.88 
TCGA-39-5040 TCGA-43-2576 TCGA-43-2581 TCGA-43-5668 TCGA-43-6647 TCGA-43-6771 
       17.06        24.59        13.12        11.47        12.46         5.42 
TCGA-43-6773 TCGA-43-8115 TCGA-43-8118 TCGA-52-7622 TCGA-52-7811 TCGA-52-7812 
        3.78         6.64         2.93        17.79         8.75        27.45 
TCGA-56-5897 TCGA-56-6546 TCGA-56-7221 TCGA-56-7822 TCGA-56-8503 TCGA-56-8504 
        0.10         1.02         0.99         0.03         1.35         5.82 
TCGA-56-8624 TCGA-56-8625 TCGA-56-8626 TCGA-56-A4ZJ TCGA-56-A5DS TCGA-58-8387 
        1.18         2.07         0.56         1.02         0.26        13.25 
TCGA-58-8388 TCGA-58-8393 TCGA-60-2696 TCGA-60-2697 TCGA-60-2704 TCGA-60-2707 
       12.43         0.66         3.58        12.23        37.94        21.70 
TCGA-60-2709 TCGA-60-2712 TCGA-60-2714 TCGA-60-2715 TCGA-60-2716 TCGA-60-2720 
       49.48         9.01        50.33        35.34        48.49         3.16 
TCGA-60-2724 TCGA-60-2725 TCGA-66-2734 TCGA-66-2737 TCGA-66-2755 TCGA-66-2765 
       23.57        26.79        43.10         2.01         0.92         2.01 
TCGA-66-2771 TCGA-66-2773 TCGA-66-2778 TCGA-66-2780 TCGA-66-2782 TCGA-66-2783 
       19.00         3.02        19.00        12.03        12.00        24.95 
TCGA-66-2785 TCGA-66-2788 TCGA-68-7756 TCGA-68-7757 TCGA-68-8251 TCGA-77-7138 
        1.94        22.98         6.64         6.94         3.12        11.18 
TCGA-77-7335 TCGA-77-8007 TCGA-77-8008 TCGA-77-8139 TCGA-77-8144 TCGA-77-A5GB 
       70.09         6.51        86.76       104.09        27.39        30.81 
TCGA-77-A5GH TCGA-85-6561 TCGA-85-7697 TCGA-85-7844 TCGA-85-7950 TCGA-85-8048 
       23.44         0.79         0.33         1.25         1.97         0.85 
TCGA-85-8049 TCGA-85-8353 TCGA-85-8355 TCGA-85-8481 TCGA-85-8580 TCGA-85-8582 
        1.97         1.78         0.66         0.66         0.89         0.13 
TCGA-85-8666 TCGA-85-A50M TCGA-85-A513 TCGA-90-6837 TCGA-90-A4ED TCGA-90-A4EE 
        0.46         0.62         0.79        24.89         8.02        10.88 
TCGA-92-7340 TCGA-92-8063 TCGA-92-8065 TCGA-96-8169 TCGA-96-8170 TCGA-98-7454 
        2.70         4.01         2.27         6.18         6.90         8.42 
TCGA-98-8023 TCGA-L3-A4E7 TCGA-NC-A5HE 
       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-22-5491 TCGA-33-4532 TCGA-33-4533 TCGA-33-4538 TCGA-33-4582 TCGA-33-4586 
       56.32         7.63       114.05        97.94       103.53        14.07 
TCGA-34-2596 TCGA-34-2600 TCGA-34-2605 TCGA-34-5231 TCGA-34-5240 TCGA-34-5927 
        2.63        61.61        28.96        50.24         7.73        22.95 
TCGA-34-7107 TCGA-37-3789 TCGA-37-4133 TCGA-37-5819 TCGA-39-5016 TCGA-39-5019 
        1.08         0.43         7.82         3.39        74.07        44.71 
TCGA-39-5027 TCGA-39-5031 TCGA-39-5037 TCGA-43-3394 TCGA-43-6143 TCGA-43-6770 
       60.76        27.35        35.70        27.02        12.36        10.19 
TCGA-43-7657 TCGA-43-7658 TCGA-46-3768 TCGA-46-6025 TCGA-51-4079 TCGA-51-4080 
        1.58        66.51         9.96        10.65         0.39         0.39 
TCGA-51-4081 TCGA-52-7809 TCGA-56-7223 TCGA-56-7582 TCGA-56-7730 TCGA-56-A4BX 
       29.95         5.42         0.99         0.85         0.20         1.51 
TCGA-56-A4BY TCGA-56-A4ZK TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K TCGA-58-A46L 
        0.99         0.13        44.09        16.47        34.36        36.59 
TCGA-58-A46N TCGA-60-2698 TCGA-60-2708 TCGA-60-2710 TCGA-60-2711 TCGA-60-2713 
       17.72        10.22        80.42        66.51        41.39        56.91 
TCGA-60-2722 TCGA-66-2742 TCGA-66-2758 TCGA-66-2766 TCGA-66-2767 TCGA-66-2770 
       29.85        21.07        20.98         1.02         2.01        23.01 
TCGA-66-2777 TCGA-66-2781 TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 TCGA-66-2793 
        2.01         3.98        40.01         5.03        30.02        10.06 
TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-77-6843 TCGA-77-6845 
       54.08         4.01        49.05         2.73        73.08        23.28 
TCGA-77-7139 TCGA-77-7140 TCGA-77-7141 TCGA-77-7142 TCGA-77-7338 TCGA-77-8009 
       89.95        20.78         0.49        42.25         0.16        53.95 
TCGA-77-8148 TCGA-77-8153 TCGA-77-8156 TCGA-85-6798 TCGA-85-7696 TCGA-85-7698 
        9.63        55.33         0.33         1.12         0.59         1.61 
TCGA-85-8052 TCGA-85-8070 TCGA-85-8071 TCGA-85-8072 TCGA-85-8277 TCGA-85-8354 
        0.53         1.41         0.46         1.18         0.36         2.01 
TCGA-85-8479 TCGA-85-A4CL TCGA-85-A53L TCGA-90-7769 TCGA-92-7341 TCGA-92-8064 
        0.72         0.46         0.43         0.59         3.48         5.26 
TCGA-94-7943 TCGA-96-7545 TCGA-98-8021 TCGA-J1-A4AH TCGA-L3-A524 TCGA-LA-A446 
        4.70        44.15        13.58         7.30        14.76         1.18 
TCGA-MF-A522 
        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        21.73        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-33-4547 TCGA-33-6738 TCGA-34-2609 TCGA-34-5928 TCGA-34-5929 
       16.60        43.10        26.99        31.23         5.52         4.96 
TCGA-37-4130 TCGA-37-4135 TCGA-37-4141 TCGA-39-5029 TCGA-43-2578 TCGA-43-3920 
        8.09         6.81         0.39        24.33        22.49        11.74 
TCGA-43-5670 TCGA-43-7656 TCGA-43-8116 TCGA-46-6026 TCGA-52-7810 TCGA-56-1622 
       18.05         6.97         6.35        13.87        30.31        28.93 
TCGA-56-6545 TCGA-56-7222 TCGA-56-7579 TCGA-56-7580 TCGA-56-8622 TCGA-56-8628 
        2.04         0.43         1.45         1.32         1.78         0.53 
TCGA-56-8629 TCGA-56-A49D TCGA-58-8386 TCGA-58-8390 TCGA-60-2695 TCGA-60-2703 
        1.12         0.99         0.03         8.94        21.07        96.82 
TCGA-60-2706 TCGA-60-2719 TCGA-60-2721 TCGA-60-2723 TCGA-60-2726 TCGA-66-2727 
       92.71        42.61        32.28        35.90        11.77        16.96 
TCGA-66-2744 TCGA-66-2753 TCGA-66-2754 TCGA-66-2756 TCGA-66-2757 TCGA-66-2759 
        0.99         1.02         2.01         0.99         0.99        25.02 
TCGA-66-2763 TCGA-66-2768 TCGA-66-2769 TCGA-66-2786 TCGA-66-2789 TCGA-66-2790 
        0.99         2.01         7.07        25.97         4.04        22.98 
TCGA-68-8250 TCGA-77-6842 TCGA-77-6844 TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 
        8.02        29.56        75.09       106.95        46.78        15.75 
TCGA-77-8130 TCGA-77-8154 TCGA-85-6560 TCGA-85-7699 TCGA-85-7843 TCGA-85-8276 
       82.92        35.90         0.36         0.03         1.15         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         1.55         2.93         3.29         2.86         0.16 
TCGA-96-7544 TCGA-98-8020 TCGA-98-8022 TCGA-NC-A5HG TCGA-NC-A5HI 
       39.88         2.73         7.33        50.86        37.32 

subtype1 subtype2 subtype3 
    0.03     0.13     0.03 
subtype1 subtype2 subtype3 
  173.79   114.05   122.43 
subtype1 subtype2 subtype3 
   12.00    13.58     8.94 
[1] "0.0 - 173.8 (12.0)" "0.1 - 114.0 (13.6)" "0.0 - 122.4 (8.9)" 
  [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" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[109] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[133] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[157] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[163] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[199] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[211] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[217] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[229] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[235] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[247] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[283] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[289] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[313] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[319] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[325] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[337] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[343] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[349] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[355] "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" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[109] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[133] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[157] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[163] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[199] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[211] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[217] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[229] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[235] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[247] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[283] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[289] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[313] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[319] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[325] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[337] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[343] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[349] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[355] "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" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[109] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[133] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[157] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[163] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[199] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[211] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[217] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[229] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[235] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[247] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[283] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[289] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[313] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[319] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[325] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[337] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[343] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[349] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[355] "subtype1" "subtype3" "subtype3"
D3V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       0       30       57        0        19        26         18
  subtype2       0       20       44        1        15        19         17
  subtype3       1       17       30        0        11        20         18
          vv
clus       STAGE IIIB STAGE IV
  subtype1          5        1
  subtype2         11        2
  subtype3          4        2
D3V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 37 95 21  5
  subtype2 30 78 14  7
  subtype3 25 66  7  6
D3V4, multiclass
          vv
clus        N0  N1  N2  N3
  subtype1 109  33  11   2
  subtype2  75  40  11   2
  subtype3  61  30  11   1
D3V5, multiclass
          vv
clus        M0  M1  MX
  subtype1 133   1  23
  subtype2 110   2  13
  subtype3  90   2  11
D3V6, multiclass
D3V7, binary
          cls
clus         0   1
  subtype1  50 108
  subtype2  25 104
  subtype3  23  81
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   50  108
  subtype2   25  104
  subtype3   23   81
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       50       25       23
  MALE        108      104       81
D3V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     8
  subtype3                                     2
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      3
  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                                                         152
  subtype2                                                         119
  subtype3                                                         102
D3V9, multiclass
D3V10, binary
          cls
clus         0   1
  subtype1   5 153
  subtype2   4 125
  subtype3   3 101
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  153
  subtype2    4  125
  subtype3    3  101
     clus
vv    subtype1 subtype2 subtype3
  NO         5        4        3
  YES      153      125      101
D3V11, continuous
D3V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 122   2   2  11
  subtype2 106   3   1   7
  subtype3  89   2   1   0
D3V13, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 60 31
  subtype2 53 22
  subtype3 47 17
subtype1 subtype2 subtype3 
      91       75       64 
subtype1 subtype2 subtype3 
      31       22       17 
$subtype1
TCGA-18-3417 TCGA-21-5784 TCGA-21-5787 TCGA-21-A5DI TCGA-22-4605 TCGA-22-4609 
       24.92        29.85        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        51.78 
TCGA-34-5234 TCGA-34-5236 TCGA-34-5241 TCGA-34-5928 TCGA-39-5011 TCGA-39-5022 
       32.68         9.04        14.07         5.52        47.80        55.17 
TCGA-39-5024 TCGA-39-5028 TCGA-39-5030 TCGA-39-5034 TCGA-39-5039 TCGA-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        12.46         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         0.66 
TCGA-60-2697 TCGA-60-2703 TCGA-60-2704 TCGA-60-2709 TCGA-68-7756 TCGA-68-7757 
       12.23        96.82        37.94        49.48         6.64         6.94 
TCGA-68-8251 TCGA-77-6842 TCGA-77-7138 TCGA-77-8007 TCGA-77-8008 TCGA-77-8146 
        3.12        29.56        11.18         6.51        86.76        71.77 
TCGA-77-8156 TCGA-77-A5GB TCGA-77-A5GH TCGA-85-6560 TCGA-85-7697 TCGA-85-7950 
        0.33        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 
        0.13         0.46         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         4.70 
TCGA-96-8169 TCGA-96-8170 TCGA-98-7454 TCGA-98-8022 TCGA-98-8023 TCGA-L3-A4E7 
        6.18         6.90         8.42         7.33        10.13         1.15 
TCGA-NC-A5HE 
       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        21.73        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 
        7.73         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-46-6025 TCGA-51-6867 TCGA-52-7622 TCGA-56-7223 TCGA-56-7582 
        2.93        10.65        60.99        17.79         0.99         0.85 
TCGA-56-7730 TCGA-56-8629 TCGA-56-A4BY TCGA-56-A4ZK TCGA-58-8391 TCGA-58-8392 
        0.20         1.12         0.99         0.13        44.09        16.47 
TCGA-58-A46K TCGA-58-A46L TCGA-58-A46N TCGA-68-7755 TCGA-77-6843 TCGA-77-6845 
       34.36        36.59        17.72         2.73        73.08        23.28 
TCGA-77-7141 TCGA-77-7142 TCGA-77-7335 TCGA-77-7338 TCGA-77-8009 TCGA-77-8153 
        0.49        42.25        70.09         0.16        53.95        55.33 
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         0.89 
TCGA-85-A4CL TCGA-90-7769 TCGA-92-7341 TCGA-92-8064 TCGA-96-7545 TCGA-J1-A4AH 
        0.46         0.59         3.48         5.26        44.15         7.30 
TCGA-L3-A524 TCGA-LA-A446 TCGA-MF-A522 
       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 
       10.82        22.95         4.96         3.39        24.33        15.58 
TCGA-43-5670 TCGA-43-6143 TCGA-43-8116 TCGA-46-6026 TCGA-52-7809 TCGA-52-7810 
       18.05        12.36         6.35        13.87         5.42        30.31 
TCGA-56-7221 TCGA-56-7222 TCGA-56-7579 TCGA-56-7822 TCGA-56-8504 TCGA-56-8622 
        0.99         0.43         1.45         0.03         5.82         1.78 
TCGA-56-A4BX TCGA-58-8390 TCGA-68-8250 TCGA-77-6844 TCGA-77-7139 TCGA-77-7140 
        1.51         8.94         8.02        75.09        89.95        20.78 
TCGA-77-7337 TCGA-77-7463 TCGA-77-7465 TCGA-77-8130 TCGA-77-8139 TCGA-77-8144 
      106.95        46.78        15.75        82.92       104.09        27.39 
TCGA-77-8148 TCGA-77-8154 TCGA-85-7699 TCGA-85-7843 TCGA-85-8070 TCGA-85-8071 
        9.63        35.90         0.03         1.15         1.41         0.46 
TCGA-85-8288 TCGA-85-8351 TCGA-85-8352 TCGA-85-8479 TCGA-85-8664 TCGA-85-A4QR 
        1.78         1.81         2.20         0.72         0.10         0.82 
TCGA-90-7766 TCGA-90-7767 TCGA-90-7964 TCGA-90-A4ED TCGA-92-7340 TCGA-96-7544 
        1.55         2.93         3.29         8.02         2.70        39.88 
TCGA-98-8020 TCGA-98-8021 TCGA-NC-A5HG TCGA-NC-A5HI 
        2.73        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 
   6.940   11.770   10.225 
[1] "0.0 - 173.8 (6.9)"  "0.1 - 141.3 (11.8)" "0.0 - 107.0 (10.2)"
  [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" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[139] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[151] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[187] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "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" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[139] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[151] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[187] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "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" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[139] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[151] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[187] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "subtype3" "subtype3"
D4V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1       24       29        0        15        21         13
  subtype2       1       15       29        1        14         8         12
  subtype3       0       13       18        0        12        13         12
          vv
clus       STAGE IIIB STAGE IV
  subtype1          1        2
  subtype2          2        0
  subtype3          2        0
D4V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 28 62 13  3
  subtype2 26 42 12  2
  subtype3 16 48  6  2
D4V4, multiclass
          vv
clus       N0 N1 N2
  subtype1 66 26  9
  subtype2 56 20  6
  subtype3 42 23  7
D4V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 81  2 23
  subtype2 68  0 14
  subtype3 60  0 10
D4V6, multiclass
D4V7, binary
          cls
clus        0  1
  subtype1 28 78
  subtype2 20 62
  subtype3 16 56
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28   78
  subtype2   20   62
  subtype3   16   56
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       28       20       16
  MALE         78       62       56
D4V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     1
  subtype2                                     5
  subtype3                                     3
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      2
  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                                                         103
  subtype2                                                          76
  subtype3                                                          67
D4V9, multiclass
D4V10, binary
          cls
clus         0   1
  subtype1   5 101
  subtype2   1  81
  subtype3   4  68
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  101
  subtype2    1   81
  subtype3    4   68
     clus
vv    subtype1 subtype2 subtype3
  NO         5        1        4
  YES      101       81       68
D4V11, continuous
D4V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 77  1  0  8
  subtype2 65  2  1  4
  subtype3 56  1  1  1
D4V13, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 40 17
  subtype2 39 30
  subtype3 28 28
subtype1 subtype2 subtype3 
      57       69       56 
subtype1 subtype2 subtype3 
      17       30       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        10.82        22.95         4.96         7.82 
TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5016 TCGA-39-5022 TCGA-39-5034 
        6.81         0.39         3.39        74.07        55.17        36.39 
TCGA-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 
       29.85        21.73        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        51.78        32.68         9.04 
TCGA-34-5241 TCGA-34-5928 TCGA-37-3789 TCGA-37-3792 TCGA-39-5011 TCGA-39-5019 
       14.07         5.52         0.43         0.39        47.80        44.71 
TCGA-39-5021 TCGA-39-5024 TCGA-39-5027 TCGA-39-5028 TCGA-39-5029 TCGA-39-5035 
       68.58        70.03        60.76         1.71        24.33        15.58 
TCGA-39-5037 TCGA-43-5670 TCGA-43-6770 TCGA-46-6025 TCGA-52-7811 TCGA-56-6545 
       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        13.12 
TCGA-43-3394 TCGA-43-5668 TCGA-51-6867 TCGA-56-5897 TCGA-56-7221 TCGA-56-7730 
       27.02        11.47        60.99         0.10         0.99         0.20 
TCGA-60-2695 TCGA-60-2704 TCGA-60-2706 TCGA-60-2710 TCGA-60-2712 TCGA-60-2713 
       21.07        37.94        92.71        66.51         9.01        56.91 
TCGA-60-2719 TCGA-60-2725 TCGA-66-2737 TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 
       42.61        26.79         2.01        23.01         3.02         2.01 
TCGA-66-2800 TCGA-68-7756 TCGA-77-6844 TCGA-77-7142 TCGA-77-7335 TCGA-85-6560 
       49.05         6.64        75.09        42.25        70.09         0.36 
TCGA-85-7696 TCGA-85-7697 TCGA-90-6837 TCGA-90-7766 TCGA-90-7769 TCGA-94-7557 
        0.59         0.33        24.89         1.55         0.59         0.16 
TCGA-94-7943 TCGA-98-7454 
        4.70         8.42 

subtype1 subtype2 subtype3 
    0.03     0.16     0.10 
subtype1 subtype2 subtype3 
  173.79   119.54   119.80 
subtype1 subtype2 subtype3 
  22.950   16.600   14.765 
[1] "0.0 - 173.8 (22.9)" "0.2 - 119.5 (16.6)" "0.1 - 119.8 (14.8)"
  [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] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[115] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[139] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[181] "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] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[115] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[139] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[181] "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] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[115] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[139] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[181] "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 34 20
  subtype2 27 17
  subtype3 28 18
  subtype4 18 20
subtype1 subtype2 subtype3 subtype4 
      54       44       46       38 
subtype1 subtype2 subtype3 subtype4 
      20       17       18       20 
$subtype1
TCGA-18-4721 TCGA-18-5592 TCGA-21-1076 TCGA-21-1080 TCGA-21-1082 TCGA-21-1083 
       90.51         3.02        60.89       122.43       119.80         8.78 
TCGA-21-5787 TCGA-22-1000 TCGA-22-5480 TCGA-22-5483 TCGA-22-5489 TCGA-33-4566 
       10.82        14.93        71.34        18.84        62.86       173.79 
TCGA-33-4582 TCGA-33-4589 TCGA-34-2608 TCGA-34-5231 TCGA-34-5239 TCGA-37-3792 
      103.53        10.98        32.84        50.24        10.82         0.39 
TCGA-37-4133 TCGA-37-4135 TCGA-37-4141 TCGA-37-5819 TCGA-39-5016 TCGA-39-5024 
        7.82         6.81         0.39         3.39        74.07        70.03 
TCGA-39-5029 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-39-5040 TCGA-43-2581 
       24.33         1.94        36.39        15.58        17.06        13.12 
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-56-7730 TCGA-60-2704 
       11.47        13.87        60.99        30.31         0.20        37.94 
TCGA-60-2708 TCGA-60-2710 TCGA-60-2713 TCGA-60-2719 TCGA-66-2758 TCGA-66-2766 
       80.42        66.51        56.91        42.61        20.98         1.02 
TCGA-66-2767 TCGA-66-2770 TCGA-66-2773 TCGA-66-2777 TCGA-66-2783 TCGA-66-2790 
        2.01        23.01         3.02         2.01        24.95        22.98 
TCGA-66-2800 TCGA-77-6844 TCGA-77-7142 TCGA-85-7696 TCGA-85-7698 TCGA-90-7766 
       49.05        75.09        42.25         0.59         1.61         1.55 
TCGA-94-7557 TCGA-94-7943 
        0.16         4.70 

$subtype3
TCGA-21-1070 TCGA-21-1071 TCGA-21-1081 TCGA-21-5782 TCGA-21-5786 TCGA-22-0940 
      119.54        46.88         9.30        31.63        21.73        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        51.78 
TCGA-34-5236 TCGA-34-5928 TCGA-37-3789 TCGA-39-5011 TCGA-39-5019 TCGA-39-5021 
        9.04         5.52         0.43        47.80        44.71        68.58 
TCGA-39-5037 TCGA-43-5670 TCGA-43-6770 TCGA-46-6025 TCGA-56-6545 TCGA-56-7222 
       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        29.85         1.74         0.56        64.90        63.52 
TCGA-22-5474 TCGA-22-5477 TCGA-22-5478 TCGA-22-5482 TCGA-22-5485 TCGA-33-6737 
       14.60        44.22         0.79        11.74        30.08        19.76 
TCGA-34-2596 TCGA-34-2604 TCGA-34-2609 TCGA-34-5234 TCGA-34-5241 TCGA-34-5927 
        2.63        31.50        31.23        32.68        14.07        22.95 
TCGA-34-7107 TCGA-39-5027 TCGA-39-5028 TCGA-52-7811 TCGA-56-5897 TCGA-56-6546 
        1.08        60.76         1.71         8.75         0.10         1.02 
TCGA-56-7221 TCGA-60-2696 TCGA-60-2697 TCGA-60-2706 TCGA-60-2725 TCGA-66-2727 
        0.99         3.58        12.23        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         0.59 
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 
  19.955   22.995   17.325   11.985 
[1] "0.0 - 173.8 (20.0)" "0.2 - 99.2 (23.0)"  "0.2 - 119.5 (17.3)"
[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] "subtype3" "subtype4" "subtype4" "subtype3" "subtype2" "subtype1"
[109] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype4"
[115] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype4" "subtype3" "subtype4" "subtype4" "subtype2" "subtype2"
[133] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype4"
[151] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[169] "subtype1" "subtype3" "subtype4" "subtype1" "subtype4" "subtype2"
[175] "subtype1" "subtype4" "subtype3" "subtype4" "subtype2" "subtype2"
[181] "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] "subtype3" "subtype4" "subtype4" "subtype3" "subtype2" "subtype1"
[109] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype4"
[115] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype4" "subtype3" "subtype4" "subtype4" "subtype2" "subtype2"
[133] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype4"
[151] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[169] "subtype1" "subtype3" "subtype4" "subtype1" "subtype4" "subtype2"
[175] "subtype1" "subtype4" "subtype3" "subtype4" "subtype2" "subtype2"
[181] "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] "subtype3" "subtype4" "subtype4" "subtype3" "subtype2" "subtype1"
[109] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype4"
[115] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype4" "subtype3" "subtype4" "subtype4" "subtype2" "subtype2"
[133] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype4"
[151] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[169] "subtype1" "subtype3" "subtype4" "subtype1" "subtype4" "subtype2"
[175] "subtype1" "subtype4" "subtype3" "subtype4" "subtype2" "subtype2"
[181] "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 27
  subtype2 72 32
  subtype3 72 35
  subtype4 34 25
subtype1 subtype2 subtype3 subtype4 
      82      104      107       59 
subtype1 subtype2 subtype3 subtype4 
      27       32       35       25 
$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 
       51.78         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-52-7810 TCGA-52-7811 TCGA-56-1622 TCGA-56-5897 TCGA-56-7221 TCGA-56-7579 
       30.31         8.75        28.93         0.10         0.99         1.45 
TCGA-56-7822 TCGA-56-8504 TCGA-56-A5DS TCGA-58-A46L TCGA-60-2707 TCGA-60-2708 
        0.03         5.82         0.26        36.59        21.70        80.42 
TCGA-60-2716 TCGA-60-2721 TCGA-60-2724 TCGA-66-2734 TCGA-66-2759 TCGA-66-2763 
       48.49        32.28        23.57        43.10        25.02         0.99 
TCGA-66-2765 TCGA-66-2771 TCGA-66-2778 TCGA-66-2780 TCGA-66-2781 TCGA-66-2782 
        2.01        19.00        19.00        12.03         3.98        12.00 
TCGA-66-2788 TCGA-68-7757 TCGA-77-6844 TCGA-77-7138 TCGA-77-7337 TCGA-77-7463 
       22.98         6.94        75.09        11.18       106.95        46.78 
TCGA-77-8008 TCGA-77-8130 TCGA-77-8144 TCGA-77-8154 TCGA-77-A5GB TCGA-85-7697 
       86.76        82.92        27.39        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         0.46         0.72         0.13         0.46         0.82 
TCGA-90-6837 TCGA-90-7766 TCGA-92-7340 TCGA-92-8065 TCGA-94-7033 TCGA-96-7544 
       24.89         1.55         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         7.73 
TCGA-34-7107 TCGA-37-4133 TCGA-39-5016 TCGA-39-5019 TCGA-39-5021 TCGA-39-5027 
        1.08         7.82        74.07        44.71        68.58        60.76 
TCGA-39-5036 TCGA-39-5037 TCGA-43-3394 TCGA-43-6770 TCGA-46-3768 TCGA-46-6025 
       35.64        35.70        27.02        10.19         9.96        10.65 
TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-51-6867 TCGA-56-7582 TCGA-56-7730 
        0.39         0.39        29.95        60.99         0.85         0.20 
TCGA-56-A4BX TCGA-56-A4BY TCGA-56-A4ZK TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K 
        1.51         0.99         0.13        44.09        16.47        34.36 
TCGA-60-2709 TCGA-60-2710 TCGA-60-2711 TCGA-60-2722 TCGA-60-2723 TCGA-66-2727 
       49.48        66.51        41.39        29.85        35.90        16.96 
TCGA-66-2737 TCGA-66-2758 TCGA-66-2766 TCGA-66-2770 TCGA-66-2787 TCGA-66-2791 
        2.01        20.98         1.02        23.01        40.01         5.03 
TCGA-66-2792 TCGA-66-2794 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-77-6843 
       30.02        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-77-7335 
       23.28        89.95        20.78         0.49        42.25        70.09 
TCGA-77-7338 TCGA-77-8009 TCGA-77-8153 TCGA-77-8156 TCGA-85-6561 TCGA-85-6798 
        0.16        53.95        55.33         0.33         0.79         1.12 
TCGA-85-7696 TCGA-85-7698 TCGA-85-7844 TCGA-85-8052 TCGA-85-8070 TCGA-85-8072 
        0.59         1.61         1.25         0.53         1.41         1.18 
TCGA-85-8276 TCGA-85-8277 TCGA-85-8354 TCGA-85-8355 TCGA-85-8580 TCGA-85-A4CL 
        0.43         0.36         2.01         0.66         0.89         0.46 
TCGA-90-7769 TCGA-92-7341 TCGA-92-8064 TCGA-96-7545 TCGA-J1-A4AH TCGA-L3-A524 
        0.59         3.48         5.26        44.15         7.30        14.76 
TCGA-LA-A446 TCGA-MF-A522 
        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        21.73        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        10.82        22.95         5.52         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        13.12        11.74        11.47 
TCGA-43-5670 TCGA-43-6143 TCGA-43-6647 TCGA-43-7656 TCGA-43-7657 TCGA-43-7658 
       18.05        12.36        12.46         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         8.94        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-98-8021 TCGA-98-8022 TCGA-98-8023 TCGA-NC-A5HE 
        0.16        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        29.85        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        32.68        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         0.66 
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-77-8146 TCGA-85-8049 TCGA-85-8351 TCGA-85-8353 TCGA-85-A50M TCGA-85-A513 
       71.77         1.97         1.81         1.78         0.62         0.79 
TCGA-90-7964 TCGA-94-7943 TCGA-96-8169 TCGA-98-7454 TCGA-L3-A4E7 
        3.29         4.70         6.18         8.42         1.15 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.13     0.03     0.03 
subtype1 subtype2 subtype3 subtype4 
  122.43   141.34   173.79    92.71 
subtype1 subtype2 subtype3 subtype4 
  12.590   15.615    8.090   12.230 
[1] "0.0 - 122.4 (12.6)" "0.1 - 141.3 (15.6)" "0.0 - 173.8 (8.1)" 
[4] "0.0 - 92.7 (12.2)" 
  [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] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[151] "subtype3" "subtype1" "subtype1" "subtype4" "subtype1" "subtype1"
[157] "subtype3" "subtype3" "subtype1" "subtype4" "subtype3" "subtype1"
[163] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[169] "subtype4" "subtype3" "subtype3" "subtype3" "subtype3" "subtype4"
[175] "subtype2" "subtype2" "subtype4" "subtype2" "subtype1" "subtype4"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype4"
[187] "subtype2" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
[193] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
[205] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[217] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[229] "subtype4" "subtype3" "subtype3" "subtype2" "subtype1" "subtype4"
[235] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[241] "subtype3" "subtype4" "subtype2" "subtype1" "subtype3" "subtype3"
[247] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[253] "subtype2" "subtype4" "subtype1" "subtype4" "subtype3" "subtype3"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[283] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[289] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[295] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[307] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[313] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
[319] "subtype4" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
[325] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[331] "subtype2" "subtype1" "subtype1" "subtype3" "subtype4" "subtype1"
[337] "subtype2" "subtype4" "subtype1" "subtype4" "subtype1" "subtype3"
[343] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype2"
[349] "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] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[151] "subtype3" "subtype1" "subtype1" "subtype4" "subtype1" "subtype1"
[157] "subtype3" "subtype3" "subtype1" "subtype4" "subtype3" "subtype1"
[163] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[169] "subtype4" "subtype3" "subtype3" "subtype3" "subtype3" "subtype4"
[175] "subtype2" "subtype2" "subtype4" "subtype2" "subtype1" "subtype4"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype4"
[187] "subtype2" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
[193] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
[205] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[217] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[229] "subtype4" "subtype3" "subtype3" "subtype2" "subtype1" "subtype4"
[235] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[241] "subtype3" "subtype4" "subtype2" "subtype1" "subtype3" "subtype3"
[247] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[253] "subtype2" "subtype4" "subtype1" "subtype4" "subtype3" "subtype3"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[283] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[289] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[295] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[307] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[313] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
[319] "subtype4" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
[325] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[331] "subtype2" "subtype1" "subtype1" "subtype3" "subtype4" "subtype1"
[337] "subtype2" "subtype4" "subtype1" "subtype4" "subtype1" "subtype3"
[343] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype2"
[349] "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] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[151] "subtype3" "subtype1" "subtype1" "subtype4" "subtype1" "subtype1"
[157] "subtype3" "subtype3" "subtype1" "subtype4" "subtype3" "subtype1"
[163] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[169] "subtype4" "subtype3" "subtype3" "subtype3" "subtype3" "subtype4"
[175] "subtype2" "subtype2" "subtype4" "subtype2" "subtype1" "subtype4"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype4"
[187] "subtype2" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
[193] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
[205] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[217] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[229] "subtype4" "subtype3" "subtype3" "subtype2" "subtype1" "subtype4"
[235] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[241] "subtype3" "subtype4" "subtype2" "subtype1" "subtype3" "subtype3"
[247] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[253] "subtype2" "subtype4" "subtype1" "subtype4" "subtype3" "subtype3"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[283] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[289] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[295] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
[307] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[313] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
[319] "subtype4" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
[325] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[331] "subtype2" "subtype1" "subtype1" "subtype3" "subtype4" "subtype1"
[337] "subtype2" "subtype4" "subtype1" "subtype4" "subtype1" "subtype3"
[343] "subtype3" "subtype3" "subtype2" "subtype4" "subtype2" "subtype2"
[349] "subtype2" "subtype3" "subtype1" "subtype1"
D7V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1       14       35        0         7        18         13
  subtype2       1       13       44        1        14        19         13
  subtype3       0       22       29        0        18        20         16
  subtype4       0       19       19        0         7         6         10
          vv
clus       STAGE IIIB STAGE IV
  subtype1          3        1
  subtype2          8        0
  subtype3          6        2
  subtype4          2        2
D7V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 18 61 11  3
  subtype2 23 72 11  7
  subtype3 31 64 13  6
  subtype4 22 36  7  1
D7V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 57 25  8  1
  subtype2 71 32  9  1
  subtype3 74 33  6  1
  subtype4 42 10  9  2
D7V5, multiclass
          vv
clus        M0  M1  MX
  subtype1  78   1  12
  subtype2 100   0  11
  subtype3  96   2  15
  subtype4  54   2   9
D7V6, multiclass
D7V7, binary
          cls
clus        0  1
  subtype1 23 70
  subtype2 25 88
  subtype3 29 85
  subtype4 20 46
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   23   70
  subtype2   25   88
  subtype3   29   85
  subtype4   20   46
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       23       25       29       20
  MALE         70       88       85       46
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                                      1
          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                                                          89
  subtype2                                                         108
  subtype3                                                         107
  subtype4                                                          65
D7V9, multiclass
D7V10, binary
          cls
clus         0   1
  subtype1   2  91
  subtype2   1 112
  subtype3   5 109
  subtype4   3  63
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   91
  subtype2    1  112
  subtype3    5  109
  subtype4    3   63
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         2        1        5        3
  YES       91      112      109       63
D7V11, continuous
D7V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 74  2  2  3
  subtype2 97  3  0  5
  subtype3 90  2  1  5
  subtype4 51  0  1  5
D7V13, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1  51  25
  subtype2  69  33
  subtype3 113  61
subtype1 subtype2 subtype3 
      76      102      174 
subtype1 subtype2 subtype3 
      25       33       61 
$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        21.73 
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        10.82        22.95 
TCGA-34-5928 TCGA-34-5929 TCGA-37-4129 TCGA-37-4130 TCGA-37-4132 TCGA-37-4135 
        5.52         4.96         6.54         8.09         7.46         6.81 
TCGA-37-4141 TCGA-37-5819 TCGA-39-5030 TCGA-39-5034 TCGA-39-5035 TCGA-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        11.74        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         8.94        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-A5GH TCGA-85-6560 TCGA-85-7699 TCGA-85-7950 TCGA-85-8276 
       15.75        23.44         0.36         0.03         1.97         0.43 
TCGA-85-8287 TCGA-85-8288 TCGA-85-8352 TCGA-85-A53L TCGA-90-7767 TCGA-90-A4ED 
        1.45         1.78         2.20         0.43         2.93         8.02 
TCGA-90-A4EE TCGA-98-8021 TCGA-98-8022 TCGA-98-8023 
       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         7.73         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-46-3768 TCGA-46-6025 TCGA-51-4079 TCGA-51-4080 
       10.19         2.93         9.96        10.65         0.39         0.39 
TCGA-51-4081 TCGA-51-6867 TCGA-52-7622 TCGA-56-7579 TCGA-56-7582 TCGA-56-7730 
       29.95        60.99        17.79         1.45         0.85         0.20 
TCGA-56-A4BX TCGA-56-A4ZK TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K TCGA-60-2709 
        1.51         0.13        44.09        16.47        34.36        49.48 
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-66-2767 TCGA-66-2770 
        2.01        20.98        25.02         1.02         2.01        23.01 
TCGA-66-2787 TCGA-66-2791 TCGA-66-2792 TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 
       40.01         5.03        30.02         4.01        49.05         2.73 
TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 TCGA-77-7140 TCGA-77-7141 TCGA-77-7338 
       73.08        23.28        89.95        20.78         0.49         0.16 
TCGA-77-8009 TCGA-77-8148 TCGA-77-8153 TCGA-77-8156 TCGA-85-6561 TCGA-85-6798 
       53.95         9.63        55.33         0.33         0.79         1.12 
TCGA-85-7696 TCGA-85-7698 TCGA-85-7844 TCGA-85-8052 TCGA-85-8070 TCGA-85-8072 
        0.59         1.61         1.25         0.53         1.41         1.18 
TCGA-85-8277 TCGA-85-8354 TCGA-85-8580 TCGA-85-A4CL TCGA-90-7769 TCGA-92-7341 
        0.36         2.01         0.89         0.46         0.59         3.48 
TCGA-92-8064 TCGA-96-7545 TCGA-J1-A4AH TCGA-L3-A524 TCGA-LA-A446 TCGA-MF-A522 
        5.26        44.15         7.30        14.76         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 
       29.85        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        51.78        32.68         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-46-6026 
       13.12        18.05        12.46         5.42         3.78        13.87 
TCGA-52-7810 TCGA-52-7811 TCGA-52-7812 TCGA-56-1622 TCGA-56-5897 TCGA-56-6545 
       30.31         8.75        27.45        28.93         0.10         2.04 
TCGA-56-7221 TCGA-56-7222 TCGA-56-7580 TCGA-56-7822 TCGA-56-8503 TCGA-56-8504 
        0.99         0.43         1.32         0.03         1.35         5.82 
TCGA-56-8624 TCGA-56-8626 TCGA-56-8628 TCGA-56-8629 TCGA-56-A49D TCGA-56-A4BY 
        1.18         0.56         0.53         1.12         0.99         0.99 
TCGA-56-A4ZJ TCGA-56-A5DS TCGA-58-8386 TCGA-58-8393 TCGA-58-A46L TCGA-60-2696 
        1.02         0.26         0.03         0.66        36.59         3.58 
TCGA-60-2697 TCGA-60-2698 TCGA-60-2704 TCGA-60-2706 TCGA-60-2707 TCGA-60-2714 
       12.23        10.22        37.94        92.71        21.70        50.33 
TCGA-60-2715 TCGA-60-2716 TCGA-60-2719 TCGA-60-2720 TCGA-60-2721 TCGA-60-2724 
       35.34        48.49        42.61         3.16        32.28        23.57 
TCGA-60-2725 TCGA-66-2734 TCGA-66-2742 TCGA-66-2744 TCGA-66-2753 TCGA-66-2763 
       26.79        43.10        21.07         0.99         1.02         0.99 
TCGA-66-2765 TCGA-66-2768 TCGA-66-2769 TCGA-66-2771 TCGA-66-2773 TCGA-66-2777 
        2.01         2.01         7.07        19.00         3.02         2.01 
TCGA-66-2778 TCGA-66-2780 TCGA-66-2782 TCGA-66-2783 TCGA-66-2785 TCGA-66-2786 
       19.00        12.03        12.00        24.95         1.94        25.97 
TCGA-66-2788 TCGA-66-2789 TCGA-66-2794 TCGA-68-7756 TCGA-68-7757 TCGA-68-8250 
       22.98         4.04        54.08         6.64         6.94         8.02 
TCGA-77-6844 TCGA-77-7138 TCGA-77-7142 TCGA-77-7335 TCGA-77-7337 TCGA-77-7463 
       75.09        11.18        42.25        70.09       106.95        46.78 
TCGA-77-8007 TCGA-77-8008 TCGA-77-8130 TCGA-77-8139 TCGA-77-8144 TCGA-77-8146 
        6.51        86.76        82.92       104.09        27.39        71.77 
TCGA-77-8154 TCGA-77-A5GB TCGA-85-7697 TCGA-85-7843 TCGA-85-8048 TCGA-85-8049 
       35.90        30.81         0.33         1.15         0.85         1.97 
TCGA-85-8071 TCGA-85-8350 TCGA-85-8351 TCGA-85-8353 TCGA-85-8355 TCGA-85-8479 
        0.46         1.97         1.81         1.78         0.66         0.72 
TCGA-85-8481 TCGA-85-8582 TCGA-85-8666 TCGA-85-A4QR TCGA-85-A50M TCGA-85-A513 
        0.66         0.13         0.46         0.82         0.62         0.79 
TCGA-90-6837 TCGA-90-7766 TCGA-90-7964 TCGA-92-7340 TCGA-92-8063 TCGA-92-8065 
       24.89         1.55         3.29         2.70         4.01         2.27 
TCGA-94-7033 TCGA-94-7557 TCGA-94-7943 TCGA-96-7544 TCGA-96-8169 TCGA-96-8170 
        2.86         0.16         4.70        39.88         6.18         6.90 
TCGA-98-7454 TCGA-98-8020 TCGA-L3-A4E7 TCGA-NC-A5HE TCGA-NC-A5HG TCGA-NC-A5HI 
        8.42         2.73         1.15        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 
   9.535   13.595   12.095 
[1] "0.0 - 114.0 (9.5)"  "0.1 - 141.3 (13.6)" "0.0 - 173.8 (12.1)"
  [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" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[181] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[193] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[217] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[229] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[247] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[259] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[271] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[289] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[295] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[301] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[307] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[313] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[319] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[325] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[331] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[337] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[343] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[349] "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" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[181] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[193] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[217] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[229] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[247] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[259] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[271] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[289] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[295] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[301] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[307] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[313] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[319] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[325] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[331] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[337] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[343] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[349] "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" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[181] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[193] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[217] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[229] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[247] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[259] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[271] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[289] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[295] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[301] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[307] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[313] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[319] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[325] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[331] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[337] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[343] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[349] "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        10         12
  subtype2       1       16       40        1        13        19         15
  subtype3       1       34       69        0        19        34         25
          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   7   5
  subtype2  25  69  13   5
  subtype3  43 122  22   7
D8V4, multiclass
          vv
clus        N0  N1  N2  N3
  subtype1  49  26   5   0
  subtype2  70  33   7   2
  subtype3 125  41  20   3
D8V5, multiclass
          vv
clus        M0  M1  MX
  subtype1  68   2  10
  subtype2 100   0  10
  subtype3 160   3  27
D8V6, multiclass
D8V7, binary
          cls
clus         0   1
  subtype1  27  53
  subtype2  25  87
  subtype3  45 149
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   27   53
  subtype2   25   87
  subtype3   45  149
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       27       25       45
  MALE         53       87      149
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                                      4
          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                                                          74
  subtype2                                                         107
  subtype3                                                         188
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   2  78
  subtype2   1 111
  subtype3   8 186
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   78
  subtype2    1  111
  subtype3    8  186
     clus
vv    subtype1 subtype2 subtype3
  NO         2        1        8
  YES       78      111      186
D8V11, continuous
D8V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  63   1   0   3
  subtype2  97   3   0   3
  subtype3 152   3   4  12
D8V13, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2       0  1
  subtype1 79 52
  subtype2 59 18
  subtype3 57 25
  subtype4 30 15
subtype1 subtype2 subtype3 subtype4 
     131       77       82       45 
subtype1 subtype2 subtype3 subtype4 
      52       18       25       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        21.73        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        24.59 
TCGA-43-2578 TCGA-43-2581 TCGA-43-3394 TCGA-43-3920 TCGA-43-5668 TCGA-46-3768 
       22.49        13.12        27.02        11.74        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        22.95         5.52         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-46-6026 TCGA-51-6867 TCGA-52-7809 TCGA-56-7222 
        6.35         2.93        13.87        60.99         5.42         0.43 
TCGA-56-7223 TCGA-56-7579 TCGA-56-7580 TCGA-56-8504 TCGA-56-8625 TCGA-56-8629 
        0.99         1.45         1.32         5.82         2.07         1.12 
TCGA-56-A49D TCGA-56-A4BX TCGA-56-A4BY TCGA-56-A4ZK TCGA-58-8390 TCGA-58-8392 
        0.99         1.51         0.99         0.13         8.94        16.47 
TCGA-58-A46N TCGA-60-2703 TCGA-60-2719 TCGA-66-2793 TCGA-68-7755 TCGA-77-6842 
       17.72        96.82        42.61        10.06         2.73        29.56 
TCGA-77-6845 TCGA-77-7138 TCGA-77-7139 TCGA-77-7140 TCGA-77-8144 TCGA-77-8148 
       23.28        11.18        89.95        20.78        27.39         9.63 
TCGA-77-8153 TCGA-77-8156 TCGA-85-6560 TCGA-85-7697 TCGA-85-8070 TCGA-85-8276 
       55.33         0.33         0.36         0.33         1.41         0.43 
TCGA-85-8287 TCGA-85-8352 TCGA-85-8354 TCGA-85-8355 TCGA-85-8479 TCGA-85-8580 
        1.45         2.20         2.01         0.66         0.72         0.89 
TCGA-85-8664 TCGA-85-8666 TCGA-85-A4QR TCGA-85-A53L TCGA-90-7766 TCGA-90-7767 
        0.10         0.46         0.82         0.43         1.55         2.93 
TCGA-90-7769 TCGA-92-7341 TCGA-92-8063 TCGA-92-8065 TCGA-94-7557 TCGA-96-8169 
        0.59         3.48         4.01         2.27         0.16         6.18 
TCGA-J1-A4AH TCGA-L3-A524 TCGA-MF-A522 TCGA-NC-A5HG TCGA-NC-A5HI 
        7.30        14.76         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 
       29.85        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        51.78 
TCGA-34-5234 TCGA-34-5236 TCGA-34-5239 TCGA-39-5019 TCGA-39-5022 TCGA-39-5024 
       32.68         9.04        10.82        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        12.46         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-60-2697 TCGA-60-2698 TCGA-60-2704 
        0.03        12.43         0.66        12.23        10.22        37.94 
TCGA-60-2720 TCGA-60-2725 TCGA-68-7756 TCGA-68-7757 TCGA-68-8250 TCGA-68-8251 
        3.16        26.79         6.64         6.94         8.02         3.12 
TCGA-77-6844 TCGA-77-7142 TCGA-77-7337 TCGA-77-7463 TCGA-77-8007 TCGA-77-8008 
       75.09        42.25       106.95        46.78         6.51        86.76 
TCGA-77-8130 TCGA-77-8146 TCGA-77-8154 TCGA-77-A5GB TCGA-85-6561 TCGA-85-7698 
       82.92        71.77        35.90        30.81         0.79         1.61 
TCGA-85-8048 TCGA-85-8049 TCGA-85-8350 TCGA-85-8351 TCGA-85-8353 TCGA-85-8481 
        0.85         1.97         1.97         1.81         1.78         0.66 
TCGA-85-8582 TCGA-85-A50M TCGA-85-A513 TCGA-90-6837 TCGA-90-7964 TCGA-90-A4ED 
        0.13         0.62         0.79        24.89         3.29         8.02 
TCGA-92-7340 TCGA-94-7943 TCGA-96-7544 TCGA-96-7545 TCGA-96-8170 TCGA-98-7454 
        2.70         4.70        39.88        44.15         6.90         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         7.73         1.71        10.19 
TCGA-51-4079 TCGA-51-4080 TCGA-52-7622 TCGA-56-7221 TCGA-56-7582 TCGA-56-7730 
        0.39         0.39        17.79         0.99         0.85         0.20 
TCGA-58-8391 TCGA-58-A46K TCGA-58-A46L TCGA-60-2706 TCGA-60-2709 TCGA-60-2710 
       44.09        34.36        36.59        92.71        49.48        66.51 
TCGA-60-2722 TCGA-66-2727 TCGA-66-2770 TCGA-66-2794 TCGA-66-2800 TCGA-77-6843 
       29.85        16.96        23.01        54.08        49.05        73.08 
TCGA-77-7141 TCGA-77-7338 TCGA-77-8009 TCGA-77-A5GH TCGA-85-6798 TCGA-85-7696 
        0.49         0.16        53.95        23.44         1.12         0.59 
TCGA-85-7844 TCGA-85-7950 TCGA-85-8052 TCGA-85-8071 TCGA-85-8072 TCGA-85-A4CL 
        1.25         1.97         0.53         0.46         1.18         0.46 
TCGA-90-A4EE TCGA-98-8021 TCGA-LA-A446 
       10.88        13.58         1.18 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.10     0.03     0.16 
subtype1 subtype2 subtype3 subtype4 
  173.79    96.82   106.95    92.71 
subtype1 subtype2 subtype3 subtype4 
  17.880    5.420    8.895   11.740 
[1] "0.0 - 173.8 (17.9)" "0.1 - 96.8 (5.4)"   "0.0 - 107.0 (8.9)" 
[4] "0.2 - 92.7 (11.7)" 
  [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] "subtype1" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
[139] "subtype2" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype4" "subtype4" "subtype3"
[157] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype4"
[175] "subtype2" "subtype3" "subtype4" "subtype4" "subtype2" "subtype1"
[181] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype4"
[187] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
[199] "subtype1" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[235] "subtype4" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[241] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[253] "subtype3" "subtype1" "subtype3" "subtype3" "subtype4" "subtype3"
[259] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[271] "subtype4" "subtype2" "subtype3" "subtype1" "subtype1" "subtype4"
[277] "subtype4" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[283] "subtype4" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[289] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[295] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype2"
[301] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[307] "subtype2" "subtype3" "subtype3" "subtype4" "subtype3" "subtype2"
[313] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[325] "subtype4" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[331] "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] "subtype1" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
[139] "subtype2" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype4" "subtype4" "subtype3"
[157] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype4"
[175] "subtype2" "subtype3" "subtype4" "subtype4" "subtype2" "subtype1"
[181] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype4"
[187] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
[199] "subtype1" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[235] "subtype4" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[241] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[253] "subtype3" "subtype1" "subtype3" "subtype3" "subtype4" "subtype3"
[259] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[271] "subtype4" "subtype2" "subtype3" "subtype1" "subtype1" "subtype4"
[277] "subtype4" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[283] "subtype4" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[289] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[295] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype2"
[301] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[307] "subtype2" "subtype3" "subtype3" "subtype4" "subtype3" "subtype2"
[313] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[325] "subtype4" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[331] "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] "subtype1" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
[139] "subtype2" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype4" "subtype4" "subtype3"
[157] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype4"
[175] "subtype2" "subtype3" "subtype4" "subtype4" "subtype2" "subtype1"
[181] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype4"
[187] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
[199] "subtype1" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
[235] "subtype4" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[241] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
[253] "subtype3" "subtype1" "subtype3" "subtype3" "subtype4" "subtype3"
[259] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[271] "subtype4" "subtype2" "subtype3" "subtype1" "subtype1" "subtype4"
[277] "subtype4" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[283] "subtype4" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[289] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[295] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype2"
[301] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[307] "subtype2" "subtype3" "subtype3" "subtype4" "subtype3" "subtype2"
[313] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[325] "subtype4" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[331] "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        14        17         14
  subtype3       1       20       28        0        14        18         10
  subtype4       0       10       16        0         5         6          5
          vv
clus       STAGE IIIB STAGE IV
  subtype1          9        3
  subtype2          2        0
  subtype3          1        1
  subtype4          5        0
D9V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 27 91 12  8
  subtype2 18 56 13  2
  subtype3 27 52 12  2
  subtype4 14 27  3  4
D9V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 87 31 16  4
  subtype2 54 29  6  0
  subtype3 58 23  7  0
  subtype4 30 14  4  0
D9V5, multiclass
          vv
clus        M0  M1  MX
  subtype1 130   3   3
  subtype2  68   0  20
  subtype3  73   1  19
  subtype4  41   0   4
D9V6, multiclass
D9V7, binary
          cls
clus         0   1
  subtype1  37 101
  subtype2  23  66
  subtype3  21  72
  subtype4  11  37
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37  101
  subtype2   23   66
  subtype3   21   72
  subtype4   11   37
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       37       23       21       11
  MALE        101       66       72       37
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                                      2
  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                                                          82
  subtype3                                                          90
  subtype4                                                          44
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1   4 134
  subtype2   3  86
  subtype3   4  89
  subtype4   0  48
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  134
  subtype2    3   86
  subtype3    4   89
  subtype4    0   48
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         4        3        4        0
  YES      134       86       89       48
D9V11, continuous
D9V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 124   2   2   3
  subtype2  66   2   1   6
  subtype3  69   1   0   5
  subtype4  39   1   0   2
D9V13, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  39  17
  subtype2  73  31
  subtype3 113  62
subtype1 subtype2 subtype3 
      56      104      175 
subtype1 subtype2 subtype3 
      17       31       62 
$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         7.73        55.17        10.19 
TCGA-51-4079 TCGA-51-4080 TCGA-51-4081 TCGA-56-7582 TCGA-56-7730 TCGA-56-8622 
        0.39         0.39        29.95         0.85         0.20         1.78 
TCGA-58-8391 TCGA-58-A46K TCGA-60-2709 TCGA-60-2710 TCGA-60-2722 TCGA-66-2727 
       44.09        34.36        49.48        66.51        29.85        16.96 
TCGA-66-2737 TCGA-66-2758 TCGA-66-2770 TCGA-66-2787 TCGA-66-2791 TCGA-66-2794 
        2.01        20.98        23.01        40.01         5.03        54.08 
TCGA-66-2795 TCGA-66-2800 TCGA-68-7755 TCGA-77-6843 TCGA-77-7141 TCGA-77-7338 
        4.01        49.05         2.73        73.08         0.49         0.16 
TCGA-77-8009 TCGA-85-6798 TCGA-85-7696 TCGA-85-7844 TCGA-85-7950 TCGA-85-8052 
       53.95         1.12         0.59         1.25         1.97         0.53 
TCGA-85-8071 TCGA-85-8072 TCGA-85-8352 TCGA-85-A4CL TCGA-90-7769 TCGA-90-A4EE 
        0.46         1.18         2.20         0.46         0.59        10.88 
TCGA-98-8023 TCGA-J1-A4AH 
       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        22.95         5.52         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        24.59        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-46-6026 TCGA-51-6867 TCGA-52-7622 TCGA-52-7811 TCGA-56-6546 
        2.93        13.87        60.99        17.79         8.75         1.02 
TCGA-56-7221 TCGA-56-7222 TCGA-56-7223 TCGA-56-7822 TCGA-56-8625 TCGA-56-8626 
        0.99         0.43         0.99         0.03         2.07         0.56 
TCGA-56-8628 TCGA-56-A49D TCGA-56-A4BX TCGA-56-A4BY TCGA-58-8390 TCGA-58-8392 
        0.53         0.99         1.51         0.99         8.94        16.47 
TCGA-60-2703 TCGA-60-2704 TCGA-60-2706 TCGA-60-2711 TCGA-60-2713 TCGA-60-2719 
       96.82        37.94        92.71        41.39        56.91        42.61 
TCGA-60-2724 TCGA-66-2785 TCGA-66-2792 TCGA-66-2793 TCGA-68-7756 TCGA-68-7757 
       23.57         1.94        30.02        10.06         6.64         6.94 
TCGA-68-8250 TCGA-77-6842 TCGA-77-6844 TCGA-77-7139 TCGA-77-7140 TCGA-77-7463 
        8.02        29.56        75.09        89.95        20.78        46.78 
TCGA-77-8008 TCGA-77-8139 TCGA-77-8144 TCGA-77-8148 TCGA-77-8153 TCGA-77-8156 
       86.76       104.09        27.39         9.63        55.33         0.33 
TCGA-77-A5GH TCGA-85-6560 TCGA-85-7843 TCGA-85-8049 TCGA-85-8070 TCGA-85-8287 
       23.44         0.36         1.15         1.97         1.41         1.45 
TCGA-85-8351 TCGA-85-8354 TCGA-85-8481 TCGA-85-8580 TCGA-85-8582 TCGA-85-8664 
        1.81         2.01         0.66         0.89         0.13         0.10 
TCGA-85-8666 TCGA-85-A4QR TCGA-90-7766 TCGA-90-A4ED TCGA-92-8063 TCGA-92-8065 
        0.46         0.82         1.55         8.02         4.01         2.27 
TCGA-94-7557 TCGA-96-8169 TCGA-98-8020 TCGA-98-8021 TCGA-98-8022 TCGA-LA-A446 
        0.16         6.18         2.73        13.58         7.33         1.18 
TCGA-MF-A522 TCGA-NC-A5HI 
        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        29.85 
TCGA-21-5786 TCGA-21-5787 TCGA-22-0940 TCGA-22-0944 TCGA-22-1011 TCGA-22-4594 
       21.73        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        51.78        32.68 
TCGA-34-5236 TCGA-34-5239 TCGA-34-5241 TCGA-34-5929 TCGA-34-7107 TCGA-37-3783 
        9.04        10.82        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        13.12        27.02        11.74 
TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 TCGA-43-7657 TCGA-43-7658 TCGA-46-3768 
       12.46         5.42         3.78         1.58        66.51         9.96 
TCGA-46-6025 TCGA-52-7809 TCGA-52-7810 TCGA-52-7812 TCGA-56-1622 TCGA-56-5897 
       10.65         5.42        30.31        27.45        28.93         0.10 
TCGA-56-6545 TCGA-56-7579 TCGA-56-7580 TCGA-56-8503 TCGA-56-8504 TCGA-56-8624 
        2.04         1.45         1.32         1.35         5.82         1.18 
TCGA-56-8629 TCGA-56-A4ZJ TCGA-56-A4ZK TCGA-58-8386 TCGA-58-8387 TCGA-58-8388 
        1.12         1.02         0.13         0.03        13.25        12.43 
TCGA-58-8393 TCGA-58-A46L TCGA-58-A46N TCGA-60-2695 TCGA-60-2696 TCGA-60-2697 
        0.66        36.59        17.72        21.07         3.58        12.23 
TCGA-60-2698 TCGA-60-2708 TCGA-60-2712 TCGA-60-2714 TCGA-60-2716 TCGA-60-2720 
       10.22        80.42         9.01        50.33        48.49         3.16 
TCGA-60-2721 TCGA-60-2723 TCGA-60-2725 TCGA-66-2734 TCGA-66-2742 TCGA-66-2744 
       32.28        35.90        26.79        43.10        21.07         0.99 
TCGA-66-2753 TCGA-66-2754 TCGA-66-2755 TCGA-66-2759 TCGA-66-2763 TCGA-66-2765 
        1.02         2.01         0.92        25.02         0.99         2.01 
TCGA-66-2766 TCGA-66-2767 TCGA-66-2768 TCGA-66-2771 TCGA-66-2777 TCGA-66-2780 
        1.02         2.01         2.01        19.00         2.01        12.03 
TCGA-66-2781 TCGA-66-2782 TCGA-66-2783 TCGA-66-2786 TCGA-66-2788 TCGA-66-2789 
        3.98        12.00        24.95        25.97        22.98         4.04 
TCGA-66-2790 TCGA-68-8251 TCGA-77-6845 TCGA-77-7138 TCGA-77-7142 TCGA-77-7335 
       22.98         3.12        23.28        11.18        42.25        70.09 
TCGA-77-7337 TCGA-77-7465 TCGA-77-8007 TCGA-77-8130 TCGA-77-8146 TCGA-77-8154 
      106.95        15.75         6.51        82.92        71.77        35.90 
TCGA-77-A5GB TCGA-85-6561 TCGA-85-7697 TCGA-85-7698 TCGA-85-7699 TCGA-85-8048 
       30.81         0.79         0.33         1.61         0.03         0.85 
TCGA-85-8276 TCGA-85-8288 TCGA-85-8350 TCGA-85-8353 TCGA-85-8355 TCGA-85-8479 
        0.43         1.78         1.97         1.78         0.66         0.72 
TCGA-85-A50M TCGA-85-A513 TCGA-85-A53L TCGA-90-6837 TCGA-90-7767 TCGA-90-7964 
        0.62         0.79         0.43        24.89         2.93         3.29 
TCGA-92-7340 TCGA-92-7341 TCGA-92-8064 TCGA-94-7033 TCGA-94-7943 TCGA-96-7544 
        2.70         3.48         5.26         2.86         4.70        39.88 
TCGA-96-7545 TCGA-96-8170 TCGA-98-7454 TCGA-L3-A4E7 TCGA-L3-A524 TCGA-NC-A5HE 
       44.15         6.90         8.42         1.15        14.76        56.61 
TCGA-NC-A5HG 
       50.86 

subtype1 subtype2 subtype3 
    0.16     0.03     0.03 
subtype1 subtype2 subtype3 
  141.34   114.05   173.79 
subtype1 subtype2 subtype3 
  10.535    9.845   12.160 
[1] "0.2 - 141.3 (10.5)" "0.0 - 114.0 (9.8)"  "0.0 - 173.8 (12.2)"
  [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" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[157] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[175] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[193] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[211] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[229] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[241] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[247] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[253] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[259] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[271] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[277] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[283] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[289] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[307] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[313] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[325] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[331] "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" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[157] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[175] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[193] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[211] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[229] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[241] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[247] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[253] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[259] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[271] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[277] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[283] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[289] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[307] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[313] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[325] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[331] "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" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[157] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[175] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[193] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[211] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[229] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[241] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[247] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[253] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[259] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[271] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[277] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[283] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[289] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[307] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[313] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[325] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[331] "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        8       21        0         7         9          6
  subtype2       2       25       35        0        11        19         19
  subtype3       0       30       66        1        25        35         26
          vv
clus       STAGE IIIB STAGE IV
  subtype1          8        0
  subtype2          3        0
  subtype3          6        4
D10V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  13  36   5   5
  subtype2  32  67  13   4
  subtype3  41 123  22   7
D10V4, multiclass
          vv
clus        N0  N1  N2  N3
  subtype1  33  21   4   1
  subtype2  74  33   9   0
  subtype3 122  43  20   3
D10V5, multiclass
          vv
clus        M0  M1  MX
  subtype1  52   0   5
  subtype2  92   0  21
  subtype3 168   4  20
D10V6, multiclass
D10V7, binary
          cls
clus         0   1
  subtype1  10  49
  subtype2  32  84
  subtype3  50 143
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10   49
  subtype2   32   84
  subtype3   50  143
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       10       32       50
  MALE         49       84      143
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                                      4
          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                                                          56
  subtype2                                                         114
  subtype3                                                         182
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   1  58
  subtype2   9 107
  subtype3   1 192
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   58
  subtype2    9  107
  subtype3    1  192
     clus
vv    subtype1 subtype2 subtype3
  NO         1        9        1
  YES       58      107      192
D10V11, continuous
D10V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  48   2   1   2
  subtype2  89   1   1   5
  subtype3 161   3   1   9
D10V13, multiclass

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2       0  1
  subtype1 47 23
  subtype2 51 17
  subtype3 50 17
subtype1 subtype2 subtype3 
      70       68       67 
subtype1 subtype2 subtype3 
      23       17       17 
$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-46-6025 TCGA-51-6867 TCGA-52-7809 TCGA-56-7222 TCGA-56-7223 TCGA-56-7579 
       10.65        60.99         5.42         0.43         0.99         1.45 
TCGA-56-7580 TCGA-56-7582 TCGA-56-8504 TCGA-56-8629 TCGA-56-A4BX TCGA-56-A4ZK 
        1.32         0.85         5.82         1.12         1.51         0.13 
TCGA-58-8387 TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K TCGA-58-A46N TCGA-60-2703 
       13.25        44.09        16.47        34.36        17.72        96.82 
TCGA-68-7755 TCGA-77-6842 TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 TCGA-77-7140 
        2.73        29.56        73.08        23.28        89.95        20.78 
TCGA-77-7465 TCGA-77-8007 TCGA-77-8009 TCGA-77-8148 TCGA-77-8153 TCGA-77-8154 
       15.75         6.51        53.95         9.63        55.33        35.90 
TCGA-77-8156 TCGA-85-6798 TCGA-85-7699 TCGA-85-7843 TCGA-85-8070 TCGA-85-8071 
        0.33         1.12         0.03         1.15         1.41         0.46 
TCGA-85-8354 TCGA-85-8580 TCGA-85-8664 TCGA-85-A4QR TCGA-90-7767 TCGA-90-7769 
        2.01         0.89         0.10         0.82         2.93         0.59 
TCGA-92-7341 TCGA-92-8063 TCGA-92-8064 TCGA-92-8065 TCGA-J1-A4AH TCGA-L3-A524 
        3.48         4.01         5.26         2.27         7.30        14.76 
TCGA-MF-A522 TCGA-NC-A5HE TCGA-NC-A5HG TCGA-NC-A5HI 
        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        21.73        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        10.82        22.95         5.52 
TCGA-34-7107 TCGA-37-3783 TCGA-39-5024 TCGA-43-6647 TCGA-43-6771 TCGA-43-6773 
        1.08         3.95        70.03        12.46         5.42         3.78 
TCGA-43-7656 TCGA-43-8115 TCGA-52-7810 TCGA-52-7811 TCGA-56-5897 TCGA-56-6545 
        6.97         6.64        30.31         8.75         0.10         2.04 
TCGA-56-7822 TCGA-56-8503 TCGA-56-8622 TCGA-56-8625 TCGA-56-8628 TCGA-56-A49D 
        0.03         1.35         1.78         2.07         0.53         0.99 
TCGA-58-8390 TCGA-68-7756 TCGA-68-7757 TCGA-68-8251 TCGA-77-6844 TCGA-77-7138 
        8.94         6.64         6.94         3.12        75.09        11.18 
TCGA-77-7335 TCGA-77-7337 TCGA-77-8008 TCGA-77-8130 TCGA-77-8139 TCGA-77-8144 
       70.09       106.95        86.76        82.92       104.09        27.39 
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         0.13         0.46         0.62         0.43         1.55 
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 
       29.85        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        51.78 
TCGA-34-5234 TCGA-39-5019 TCGA-39-5022 TCGA-39-5027 TCGA-39-5040 TCGA-43-6770 
       32.68        44.71        55.17        60.76        17.06        10.19 
TCGA-43-7658 TCGA-43-8116 TCGA-43-8118 TCGA-46-6026 TCGA-52-7622 TCGA-52-7812 
       66.51         6.35         2.93        13.87        17.79        27.45 
TCGA-56-6546 TCGA-56-7221 TCGA-56-7730 TCGA-56-8624 TCGA-56-8626 TCGA-56-A4BY 
        1.02         0.99         0.20         1.18         0.56         0.99 
TCGA-56-A4ZJ TCGA-58-8386 TCGA-58-8388 TCGA-58-8393 TCGA-58-A46L TCGA-60-2697 
        1.02         0.03        12.43         0.66        36.59        12.23 
TCGA-60-2704 TCGA-60-2709 TCGA-68-8250 TCGA-77-7141 TCGA-77-7142 TCGA-77-7338 
       37.94        49.48         8.02         0.49        42.25         0.16 
TCGA-77-7463 TCGA-77-8146 TCGA-77-A5GH TCGA-85-7844 TCGA-85-8048 TCGA-85-8052 
       46.78        71.77        23.44         1.25         0.85         0.53 
TCGA-85-8072 TCGA-85-8350 TCGA-85-8351 TCGA-85-8352 TCGA-85-8353 TCGA-85-8355 
        1.18         1.97         1.81         2.20         1.78         0.66 
TCGA-85-A4CL TCGA-85-A513 TCGA-90-6837 TCGA-90-7964 TCGA-90-A4ED TCGA-90-A4EE 
        0.46         0.79        24.89         3.29         8.02        10.88 
TCGA-94-7943 TCGA-96-7545 TCGA-96-8170 TCGA-98-8021 TCGA-98-8022 TCGA-L3-A4E7 
        4.70        44.15         6.90        13.58         7.33         1.15 
TCGA-LA-A446 
        1.18 

subtype1 subtype2 subtype3 
    0.03     0.03     0.03 
subtype1 subtype2 subtype3 
   96.82   106.95    71.77 
subtype1 subtype2 subtype3 
  10.140    3.865   10.190 
[1] "0.0 - 96.8 (10.1)" "0.0 - 107.0 (3.9)" "0.0 - 71.8 (10.2)"
  [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" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [67] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [79] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[163] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[193] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "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" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [67] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [79] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[163] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[193] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "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" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [67] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [79] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[163] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[193] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "subtype1"
D11V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1        7       25        0        13        18         13
  subtype2       1       12       24        1        13        15         11
  subtype3       0       26       20        0        11         5          8
          vv
clus       STAGE IIIB STAGE IV
  subtype1          2        0
  subtype2          3        0
  subtype3          0        1
D11V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 12 55 12  1
  subtype2 18 46 12  4
  subtype3 30 36  6  0
D11V4, multiclass
          vv
clus       N0 N1 N2
  subtype1 46 27  7
  subtype2 50 22  6
  subtype3 51 11  7
D11V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 64  0 15
  subtype2 64  0 16
  subtype3 55  1 15
D11V6, multiclass
D11V7, binary
          cls
clus        0  1
  subtype1 18 62
  subtype2 19 61
  subtype3 16 56
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   18   62
  subtype2   19   61
  subtype3   16   56
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       18       19       16
  MALE         62       61       56
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                                      1
          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                                                          73
  subtype2                                                          78
  subtype3                                                          69
D11V9, multiclass
D11V10, binary
          cls
clus        0  1
  subtype1  3 77
  subtype2  2 78
  subtype3  4 68
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   77
  subtype2    2   78
  subtype3    4   68
     clus
vv    subtype1 subtype2 subtype3
  NO         3        2        4
  YES       77       78       68
D11V11, continuous
D11V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 65  1  0  5
  subtype2 57  2  0  5
  subtype3 52  1  2  3
D11V13, multiclass

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2       0  1
  subtype1 88 29
  subtype2 60 28
subtype1 subtype2 
     117       88 
subtype1 subtype2 
      29       28 
$subtype1
TCGA-21-5782 TCGA-21-5784 TCGA-21-5786 TCGA-21-A5DI TCGA-22-4605 TCGA-22-4609 
       31.63        29.85        21.73        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        51.78        32.68         9.04        10.82        22.95 
TCGA-34-5928 TCGA-34-5929 TCGA-34-7107 TCGA-37-3783 TCGA-39-5019 TCGA-39-5040 
        5.52         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        12.46         5.42         3.78         6.97         1.58 
TCGA-46-6025 TCGA-52-7622 TCGA-52-7809 TCGA-52-7810 TCGA-52-7811 TCGA-52-7812 
       10.65        17.79         5.42        30.31         8.75        27.45 
TCGA-56-5897 TCGA-56-6546 TCGA-56-7223 TCGA-56-7580 TCGA-56-7822 TCGA-56-8503 
        0.10         1.02         0.99         1.32         0.03         1.35 
TCGA-56-8504 TCGA-56-8622 TCGA-56-8624 TCGA-56-8625 TCGA-56-8626 TCGA-56-8628 
        5.82         1.78         1.18         2.07         0.56         0.53 
TCGA-56-8629 TCGA-56-A49D TCGA-56-A4ZJ TCGA-58-8386 TCGA-58-8388 TCGA-58-8393 
        1.12         0.99         1.02         0.03        12.43         0.66 
TCGA-60-2697 TCGA-60-2704 TCGA-68-7756 TCGA-68-7757 TCGA-68-8250 TCGA-68-8251 
       12.23        37.94         6.64         6.94         8.02         3.12 
TCGA-77-6844 TCGA-77-7138 TCGA-77-7142 TCGA-77-7335 TCGA-77-7337 TCGA-77-7463 
       75.09        11.18        42.25        70.09       106.95        46.78 
TCGA-77-7465 TCGA-77-8007 TCGA-77-8008 TCGA-77-8130 TCGA-77-8139 TCGA-77-8144 
       15.75         6.51        86.76        82.92       104.09        27.39 
TCGA-77-8146 TCGA-77-A5GB TCGA-77-A5GH TCGA-85-6560 TCGA-85-6561 TCGA-85-7696 
       71.77        30.81        23.44         0.36         0.79         0.59 
TCGA-85-7697 TCGA-85-7698 TCGA-85-7950 TCGA-85-8048 TCGA-85-8049 TCGA-85-8276 
        0.33         1.61         1.97         0.85         1.97         0.43 
TCGA-85-8288 TCGA-85-8350 TCGA-85-8351 TCGA-85-8353 TCGA-85-8479 TCGA-85-8481 
        1.78         1.97         1.81         1.78         0.72         0.66 
TCGA-85-8580 TCGA-85-8582 TCGA-85-A50M TCGA-85-A513 TCGA-90-6837 TCGA-90-7766 
        0.89         0.13         0.62         0.79        24.89         1.55 
TCGA-90-7767 TCGA-90-7964 TCGA-90-A4ED TCGA-90-A4EE TCGA-92-7340 TCGA-92-7341 
        2.93         3.29         8.02        10.88         2.70         3.48 
TCGA-92-8064 TCGA-94-7033 TCGA-94-7557 TCGA-94-7943 TCGA-96-7544 TCGA-96-7545 
        5.26         2.86         0.16         4.70        39.88        44.15 
TCGA-96-8169 TCGA-96-8170 TCGA-98-7454 TCGA-98-8020 TCGA-98-8021 TCGA-98-8022 
        6.18         6.90         8.42         2.73        13.58         7.33 
TCGA-98-8023 TCGA-L3-A4E7 TCGA-L3-A524 
       10.13         1.15        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-46-6026 
       10.19        66.51         6.64         6.35         2.93        13.87 
TCGA-51-6867 TCGA-56-6545 TCGA-56-7221 TCGA-56-7222 TCGA-56-7579 TCGA-56-7582 
       60.99         2.04         0.99         0.43         1.45         0.85 
TCGA-56-7730 TCGA-56-A4BX TCGA-56-A4BY TCGA-56-A4ZK TCGA-58-8387 TCGA-58-8390 
        0.20         1.51         0.99         0.13        13.25         8.94 
TCGA-58-8391 TCGA-58-8392 TCGA-58-A46K TCGA-58-A46L TCGA-58-A46N TCGA-60-2703 
       44.09        16.47        34.36        36.59        17.72        96.82 
TCGA-60-2709 TCGA-68-7755 TCGA-77-6842 TCGA-77-6843 TCGA-77-6845 TCGA-77-7139 
       49.48         2.73        29.56        73.08        23.28        89.95 
TCGA-77-7140 TCGA-77-7141 TCGA-77-7338 TCGA-77-8009 TCGA-77-8148 TCGA-77-8153 
       20.78         0.49         0.16        53.95         9.63        55.33 
TCGA-77-8154 TCGA-77-8156 TCGA-85-6798 TCGA-85-7699 TCGA-85-7843 TCGA-85-7844 
       35.90         0.33         1.12         0.03         1.15         1.25 
TCGA-85-8052 TCGA-85-8070 TCGA-85-8071 TCGA-85-8072 TCGA-85-8287 TCGA-85-8352 
        0.53         1.41         0.46         1.18         1.45         2.20 
TCGA-85-8354 TCGA-85-8355 TCGA-85-8664 TCGA-85-8666 TCGA-85-A4CL TCGA-85-A4QR 
        2.01         0.66         0.10         0.46         0.46         0.82 
TCGA-85-A53L TCGA-90-7769 TCGA-92-8063 TCGA-92-8065 TCGA-J1-A4AH TCGA-LA-A446 
        0.43         0.59         4.01         2.27         7.30         1.18 
TCGA-MF-A522 TCGA-NC-A5HE TCGA-NC-A5HG TCGA-NC-A5HI 
        3.02        56.61        50.86        37.32 

subtype1 subtype2 
    0.03     0.03 
subtype1 subtype2 
  106.95    96.82 
subtype1 subtype2 
    6.51     9.91 
[1] "0.0 - 107.0 (6.5)" "0.0 - 96.8 (9.9)" 
  [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" "subtype1"
 [61] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[187] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "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" "subtype1"
 [61] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[187] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "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" "subtype1"
 [61] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[175] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[187] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype2"
[1] "hr=" "1"  
D12V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIIA
  subtype1       1       30       40        1        21        21         15
  subtype2       1       15       29        0        16        17         17
          vv
clus       STAGE IIIB STAGE IV
  subtype1          3        1
  subtype2          2        0
D12V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 39 72 18  4
  subtype2 21 65 12  1
D12V4, multiclass
          vv
clus       N0 N1 N2
  subtype1 86 32 10
  subtype2 61 28 10
D12V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 99  1 33
  subtype2 84  0 13
D12V6, multiclass
D12V7, binary
          cls
clus         0   1
  subtype1  33 100
  subtype2  20  79
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   33  100
  subtype2   20   79
        clus
vv       subtype1 subtype2
  FEMALE       33       20
  MALE        100       79
D12V8, continuous
          vv
clus       LUNG BASALOID SQUAMOUS CELL CARCINOMA
  subtype1                                     2
  subtype2                                     5
          vv
clus       LUNG PAPILLARY SQUAMOUS CELL CARICNOMA
  subtype1                                      3
  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                                                         128
  subtype2                                                          92
D12V9, multiclass
D12V10, binary
          cls
clus         0   1
  subtype1   4 129
  subtype2   5  94
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  129
  subtype2    5   94
     clus
vv    subtype1 subtype2
  NO         4        5
  YES      129       94
D12V11, continuous
D12V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 95  2  0  7
  subtype2 79  2  2  6
D12V13, multiclass
> q(save="no")
