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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.84.4098/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.84.4098/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/LUAD-TP/2909298/1.GDAC_mergedClustering.Finished/LUAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/LUAD-TP/2843279/1.GDAC_clinicalDataPicker.Finished/LUAD-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=376, in cluster file=477, common to both=374
[1]  10 374
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
 5  9 12  6 
 1  2  3  4 
 5  9 12  6 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3 
 7 13 12 
 1  2  3 
 7 13 12 
[1] "CN_CNMF"
[1] 3
  1   2   3   4 
113 144  71  42 
  1   2   3   4 
113 144  71  42 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3  4  5 
65 73 68 77 21 
 1  2  3  4  5 
65 73 68 77 21 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
86 75 75 
 1  2  3 
86 75 75 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
23 90 65 58 
 1  2  3  4 
23 90 65 58 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4  5 
95 70 51 75 40 
 1  2  3  4  5 
95 70 51 75 40 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
143  99  89 
  1   2   3 
143  99  89 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
141 155  51 
  1   2   3 
141 155  51 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
144 100 103 
  1   2   3 
144 100 103 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "KARNOFSKYPERFORMANCESCORE"             
[11] "HISTOLOGICALTYPE"                      
[12] "PATHOLOGICSPREAD(PT)"                  
[13] "PATHOLOGICSPREAD(PN)"                  
[14] "PATHOLOGICSPREAD(M)"                   
[15] "TUMORSTAGE"                            
[16] "RADIATIONS.RADIATION.REGIMENINDICATION"
[17] "NUMBERPACKYEARSSMOKED"                 
[18] "TOBACCOSMOKINGHISTORYINDICATOR"        
[19] "YEAROFTOBACCOSMOKINGONSET"             
[20] "COMPLETENESS.OF.RESECTION"             
[21] "BATCHNUMBER"                           

Input Data has 21 rows and 374 columns.

[1] "Batch" "21"   
[1] "Last Follow UP"
TCGA-05-4244 TCGA-05-4249 TCGA-05-4250 TCGA-05-4382 TCGA-05-4384 TCGA-05-4389 
          NA         1158          121          606          426           NA 
TCGA-05-4390 TCGA-05-4395 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 
        1126           NA          303           NA         1431           NA 
TCGA-05-4403 TCGA-05-4405 TCGA-05-4410 TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 
          NA          610           NA           90          454           NA 
TCGA-05-4420 TCGA-05-4422 TCGA-05-4424 TCGA-05-4425 TCGA-05-4426 TCGA-05-4427 
         911           NA          913           NA          791          791 
TCGA-05-4430 TCGA-05-4432 TCGA-05-4433 TCGA-05-4434 TCGA-05-5420 TCGA-05-5423 
         761          761          730          457           31          151 
TCGA-05-5425 TCGA-05-5428 TCGA-05-5429 TCGA-05-5715 TCGA-35-3615 TCGA-35-4122 
          90           NA           30           62           14          224 
TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4626 TCGA-38-4627 TCGA-38-4628 
         181          264         1448         2595         1147         1491 
TCGA-38-4629 TCGA-38-4630 TCGA-38-4631 TCGA-38-4632 TCGA-38-6178 TCGA-38-7271 
         863         1073          354         1357          158           NA 
TCGA-38-A44F TCGA-44-2655 TCGA-44-2656 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 
         133          574          581          400          529          103 
TCGA-44-2662 TCGA-44-2664 TCGA-44-2665 TCGA-44-2666 TCGA-44-2668 TCGA-44-3396 
         480          383          400           97          246          311 
TCGA-44-3398 TCGA-44-3917 TCGA-44-3918 TCGA-44-3919 TCGA-44-4112 TCGA-44-5643 
         253          392          196          189          140          106 
TCGA-44-5644 TCGA-44-5645 TCGA-44-6144 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 
         498          208            9          102          302          236 
TCGA-44-6148 TCGA-44-6774 TCGA-44-6775 TCGA-44-6776 TCGA-44-6777 TCGA-44-6778 
          95          165           82         1938           NA         1110 
TCGA-44-6779 TCGA-44-7659 TCGA-44-7660 TCGA-44-7661 TCGA-44-7662 TCGA-44-7667 
          NA          298          162          153           50          557 
TCGA-44-7669 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-44-8117 TCGA-44-8119 
          NA          531          535          418          259           98 
TCGA-49-4486 TCGA-49-4487 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4501 
        2318           NA           NA           NA         1081         1421 
TCGA-49-4505 TCGA-49-4506 TCGA-49-4507 TCGA-49-4510 TCGA-49-4512 TCGA-49-4514 
         428          999          268          896           NA         1314 
TCGA-49-6742 TCGA-49-6743 TCGA-49-6744 TCGA-49-6745 TCGA-49-6761 TCGA-49-6767 
         457          369          395          150            1           NA 
TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5051 TCGA-50-5055 TCGA-50-5066 
          NA         2174         1485          455          785          297 
TCGA-50-5068 TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5932 TCGA-50-5933 
        1499          245          282          267         1091         2369 
TCGA-50-5935 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 
         653          257          460          285          135          373 
TCGA-50-5946 TCGA-50-6590 TCGA-50-6591 TCGA-50-6592 TCGA-50-6593 TCGA-50-6594 
         349           NA           NA           NA           NA           NA 
TCGA-50-6595 TCGA-50-6597 TCGA-50-6673 TCGA-50-7109 TCGA-53-7624 TCGA-53-7626 
          NA         1015           NA          255         1068          970 
TCGA-53-7813 TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-55-5899 
         418          701         1178         1479         1374           87 
TCGA-55-6543 TCGA-55-6642 TCGA-55-6712 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 
           2          992           24           NA         1238           NA 
TCGA-55-6971 TCGA-55-6972 TCGA-55-6975 TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 
          28         1475           NA           NA           NA           67 
TCGA-55-6981 TCGA-55-6982 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 
          NA           NA         1826           NA         1233         2161 
TCGA-55-6987 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7570 TCGA-55-7573 
        1170           61           18           34           NA            4 
TCGA-55-7574 TCGA-55-7576 TCGA-55-7725 TCGA-55-7726 TCGA-55-7727 TCGA-55-7728 
          95           40           39           31           31           24 
TCGA-55-7815 TCGA-55-7816 TCGA-55-7903 TCGA-55-7907 TCGA-55-7910 TCGA-55-7911 
          54           31           19           16          197           21 
TCGA-55-7914 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8092 TCGA-55-8094 
           3           21           92            6           26            4 
TCGA-55-8097 TCGA-55-8299 TCGA-55-8301 TCGA-55-8510 TCGA-55-8511 TCGA-55-8512 
          15          215           43          227            9            3 
TCGA-55-8513 TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 TCGA-55-8619 TCGA-55-8620 
         146          212           15           48           49           65 
TCGA-55-8621 TCGA-55-A48X TCGA-55-A48Y TCGA-55-A48Z TCGA-55-A490 TCGA-55-A491 
         105           33           31           29           48           NA 
TCGA-55-A492 TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DG TCGA-62-8399 TCGA-62-A46O 
           1           28            5          161         2093           NA 
TCGA-62-A46P TCGA-62-A470 TCGA-62-A472 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 
          NA           NA          540         1728          628         1189 
TCGA-64-1679 TCGA-64-1680 TCGA-64-1681 TCGA-64-5774 TCGA-64-5775 TCGA-64-5778 
        1685         1126           NA         2550            3          926 
TCGA-64-5779 TCGA-64-5781 TCGA-64-5815 TCGA-67-3770 TCGA-67-3771 TCGA-67-3772 
         507         1202          223           30           60           18 
TCGA-67-3773 TCGA-67-3774 TCGA-67-4679 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 
          62           18           NA           27           21          422 
TCGA-69-7760 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 TCGA-69-7973 
         154          186          690          414          129          230 
TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 TCGA-69-8253 TCGA-69-8254 
         184           70           89          382           99           76 
TCGA-69-8255 TCGA-71-6725 TCGA-73-4658 TCGA-73-4659 TCGA-73-4662 TCGA-73-4666 
         128           61         1599          711          911          617 
TCGA-73-4668 TCGA-73-4670 TCGA-73-4675 TCGA-73-4676 TCGA-73-4677 TCGA-73-7498 
         467           14           40          122           38          621 
TCGA-73-7499 TCGA-75-5122 TCGA-75-5125 TCGA-75-5126 TCGA-75-5146 TCGA-75-5147 
         519           NA           NA           NA           NA           NA 
TCGA-75-6203 TCGA-75-6205 TCGA-75-6206 TCGA-75-6207 TCGA-75-6211 TCGA-75-6212 
          NA           NA           NA           NA           NA           NA 
TCGA-75-6214 TCGA-75-7025 TCGA-75-7027 TCGA-75-7030 TCGA-75-7031 TCGA-78-7143 
          NA           NA           NA           NA           NA           NA 
TCGA-78-7145 TCGA-78-7146 TCGA-78-7147 TCGA-78-7148 TCGA-78-7149 TCGA-78-7150 
          NA           NA           NA           NA         1093           NA 
TCGA-78-7152 TCGA-78-7153 TCGA-78-7154 TCGA-78-7155 TCGA-78-7156 TCGA-78-7158 
        1201          760           NA           NA           NA           NA 
TCGA-78-7159 TCGA-78-7160 TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 TCGA-78-7166 
        1220          678          214           NA         6812           NA 
TCGA-78-7167 TCGA-78-7220 TCGA-78-7535 TCGA-78-7536 TCGA-78-7537 TCGA-78-7539 
          NA           NA           NA           NA           NA          327 
TCGA-78-7540 TCGA-78-7542 TCGA-78-7633 TCGA-80-5607 TCGA-80-5608 TCGA-80-5611 
         881           NA          994           NA           NA           NA 
TCGA-83-5908 TCGA-86-6562 TCGA-86-6851 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 
         420           NA           NA           11           27            7 
TCGA-86-7714 TCGA-86-7953 TCGA-86-7954 TCGA-86-8054 TCGA-86-8055 TCGA-86-8074 
          NA           34           NA           19           10           24 
TCGA-86-8075 TCGA-86-8076 TCGA-86-8278 TCGA-86-8279 TCGA-86-8280 TCGA-86-8281 
          43           26           23           21           16           NA 
TCGA-86-8585 TCGA-86-8668 TCGA-86-8671 TCGA-86-8673 TCGA-86-8674 TCGA-86-A4P8 
          34           44           17           NA           NA           39 
TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 
          37           NA            1           39           35           11 
TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 
          NA          819          127           28           31          297 
TCGA-93-7348 TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7567 TCGA-95-7944 
         127          185           34            2          163           21 
TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 
          40          132          963         1435         1476         1331 
TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-97-8172 TCGA-97-8174 
         263          181           NA           22          181           NA 
TCGA-97-8177 TCGA-97-8179 TCGA-99-7458 TCGA-99-8025 TCGA-99-8028 TCGA-99-8032 
         146           15          250          427          458           44 
TCGA-99-8033 TCGA-J2-8192 TCGA-J2-8194 TCGA-J2-A4AD TCGA-J2-A4AE TCGA-J2-A4AG 
         169          153          113          287          282          238 
TCGA-L4-A4E5 TCGA-L4-A4E6 
         212           76 
Variable 1:'AGE':	nDistinctValues=48,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=84,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=223,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=21,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=74,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=6,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'HISTOLOGICAL.TYPE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'PATHOLOGY.T':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'PATHOLOGY.N':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'PATHOLOGICSPREAD(M)':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'TUMOR.STAGE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBERPACKYEARSSMOKED':	nDistinctValues=86,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'TOBACCOSMOKINGHISTORYINDICATOR':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=53,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'BATCH.NUMBER':	nDistinctValues=19,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "GENDER"                                
 [3] "KARNOFSKY.PERFORMANCE.SCORE"           
 [4] "HISTOLOGICAL.TYPE"                     
 [5] "PATHOLOGY.T"                           
 [6] "PATHOLOGY.N"                           
 [7] "PATHOLOGICSPREAD(M)"                   
 [8] "TUMOR.STAGE"                           
 [9] "RADIATIONS.RADIATION.REGIMENINDICATION"
[10] "NUMBERPACKYEARSSMOKED"                 
[11] "TOBACCOSMOKINGHISTORYINDICATOR"        
[12] "YEAROFTOBACCOSMOKINGONSET"             
[13] "COMPLETENESS.OF.RESECTION"             
[1] "TUMOR.?STAGE" "8"           
[1] "stage2"
vv
  1   2   3   4 
200  81  66  21 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "5"          
[1] "PATHOLOGY.N" "6"          
Output Data has 374 columns, 1 survival variables, and 13 non-survival variables.
AGE, nv=48, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=6, binary=FALSE, numeric=TRUE
HISTOLOGICAL.TYPE, nv=11, binary=FALSE, numeric=FALSE
PATHOLOGY.T, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
114 209  31  17 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
114 209  31  17 
$ClinVariableName
[1] "PATHOLOGY.T"

$Table
vv
 T1  T2  T3  T4 
114 209  31  17 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
114 209  31  17 
PATHOLOGY.N, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
234  72  56   2 
[1] "table(vv)"
vv
   N0    N1 N2+N3 
  234    72    58 
$ClinVariableName
[1] "PATHOLOGY.N"

$Table
vv
 N0  N1  N2  N3 
234  72  56   2 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   N0    N1 N2+N3 
  234    72    58 
PATHOLOGICSPREAD(M), nv=4, binary=FALSE, numeric=FALSE
TUMOR.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('TUMOR.?STAGE$',vnm)"
vv
  I  II III  IV 
200  81  66  21 
[1] "table(vv)"
vv
  I  II III  IV 
200  81  66  21 
$ClinVariableName
[1] "TUMOR.STAGE"

$Table
vv
  I  II III  IV 
200  81  66  21 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


  I  II III  IV 
200  81  66  21 
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=86, binary=FALSE, numeric=TRUE
TOBACCOSMOKINGHISTORYINDICATOR, nv=4, binary=FALSE, numeric=FALSE
YEAROFTOBACCOSMOKINGONSET, nv=53, 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  4  0
  subtype2  8  1
  subtype3 11  1
  subtype4  4  2
subtype1 subtype2 subtype3 subtype4 
       4        9       12        6 
subtype1 subtype2 subtype3 subtype4 
       0        1        1        2 
$subtype1
TCGA-35-4123 TCGA-44-2665 TCGA-44-3919 TCGA-55-1595 
        5.95        13.15         6.21        48.62 

$subtype2
TCGA-05-4249 TCGA-05-4250 TCGA-35-4122 TCGA-44-2656 TCGA-44-2662 TCGA-44-2668 
       38.07         3.98         7.36        19.10        15.78         8.09 
TCGA-44-3398 TCGA-44-3918 TCGA-64-1676 
        8.32         6.44        56.81 

$subtype3
TCGA-35-3615 TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 
        0.46        18.87        13.15        17.39         3.39         3.19 
TCGA-44-4112 TCGA-64-1680 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 
        4.60        37.02         0.99         0.59         2.04         0.59 

$subtype4
TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-64-1677 TCGA-64-1678 TCGA-67-3771 
       23.05        38.73        45.17        20.65        39.09         1.97 

subtype1 subtype2 subtype3 subtype4 
    5.95     3.98     0.46     1.97 
subtype1 subtype2 subtype3 subtype4 
   48.62    56.81    37.02    45.17 
subtype1 subtype2 subtype3 subtype4 
    9.68     8.32     3.29    30.89 
[1] "6.0 - 48.6 (9.7)"  "4.0 - 56.8 (8.3)"  "0.5 - 37.0 (3.3)" 
[4] "2.0 - 45.2 (30.9)"
 [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[19] "subtype4" "subtype4" "subtype1" "subtype4" "subtype2" "subtype4"
[25] "subtype4" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
[31] "subtype3"
 [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[19] "subtype4" "subtype4" "subtype1" "subtype4" "subtype2" "subtype4"
[25] "subtype4" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
[31] "subtype3"
 [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[19] "subtype4" "subtype4" "subtype1" "subtype4" "subtype2" "subtype4"
[25] "subtype4" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
[31] "subtype3"
D1V2, continuous
D1V3, binary
          cls
clus       0 1
  subtype1 3 2
  subtype2 3 6
  subtype3 9 3
  subtype4 3 3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3    2
  subtype2    3    6
  subtype3    9    3
  subtype4    3    3
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        3        3        9        3
  MALE          2        6        3        3
D1V4, continuous
[1] "Remove cluster labels:" "subtype1"               "subtype2"              
[4] "subtype4"              
clus
subtype1 subtype2 subtype4 
       1        1        1 
character(0)
          vv
clus       LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                                 0
  subtype2                                 0
  subtype3                                 1
  subtype4                                 0
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                  4
  subtype2                                                  9
  subtype3                                                 11
  subtype4                                                  6
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA
  subtype1                              1
  subtype2                              0
  subtype3                              0
  subtype4                              0
D1V5, multiclass
          vv
clus       T1 T2 T3
  subtype1  3  2  0
  subtype2  4  4  1
  subtype3  4  8  0
  subtype4  1  5  0
D1V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1  3  1     1
  subtype2  8  1     0
  subtype3  9  1     1
  subtype4  3  1     2
D1V7, multiclass
          vv
clus       M0 M1
  subtype1  4  1
  subtype2  9  0
  subtype3 11  1
  subtype4  6  0
D1V8, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0        4        9       11        6
  M1        1        0        1        0
          vv
clus        I II III IV
  subtype1  3  1   0  1
  subtype2  8  0   1  0
  subtype3 10  1   0  1
  subtype4  2  2   2  0
D1V9, multiclass
D1V10, binary
          cls
clus        0  1
  subtype1  0  5
  subtype2  0  9
  subtype3  1 11
  subtype4  0  6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0    5
  subtype2    0    9
  subtype3    1   11
  subtype4    0    6
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        0        1        0
  YES        5        9       11        6
D1V11, continuous
[1] "Remove cluster labels:" "subtype1"              
clus
subtype1 subtype2 subtype3 subtype4 
       2        9        6        3 
 [1] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[13] "subtype3" "subtype4" "subtype2" "subtype4" "subtype4" "subtype3"
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                           3
  subtype2                                           5
  subtype3                                           2
  subtype4                                           2
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                      0              0
  subtype2                                      3              1
  subtype3                                      6              1
  subtype4                                      1              3
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   2
  subtype2                   0
  subtype3                   3
  subtype4                   0
D1V12, multiclass
D1V13, continuous
[1] "Remove cluster labels:" "subtype1"              
clus
subtype1 subtype2 subtype3 subtype4 
       2        6        6        5 
 [1] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [7] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
[13] "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
          vv
clus       R0 R2 RX
  subtype1  3  0  1
  subtype2  7  1  0
  subtype3 10  0  0
  subtype4  6  0  0
D1V14, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1  5  2
  subtype2 12  1
  subtype3 10  1
subtype1 subtype2 subtype3 
       7       13       11 
subtype1 subtype2 subtype3 
       2        1        1 
$subtype1
TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-64-1677 TCGA-64-1678 
       23.05        38.73        48.62        45.17        20.65        39.09 
TCGA-67-3771 
        1.97 

$subtype2
TCGA-35-3615 TCGA-44-2655 TCGA-44-2656 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 
        0.46        18.87        19.10        13.15        17.39         3.39 
TCGA-44-2666 TCGA-44-4112 TCGA-64-1680 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 
        3.19         4.60        37.02         0.99         0.59         2.04 
TCGA-67-3774 
        0.59 

$subtype3
TCGA-05-4249 TCGA-05-4250 TCGA-35-4122 TCGA-35-4123 TCGA-44-2662 TCGA-44-2665 
       38.07         3.98         7.36         5.95        15.78        13.15 
TCGA-44-2668 TCGA-44-3398 TCGA-44-3918 TCGA-44-3919 TCGA-64-1676 
        8.09         8.32         6.44         6.21        56.81 

subtype1 subtype2 subtype3 
    1.97     0.46     3.98 
subtype1 subtype2 subtype3 
   48.62    37.02    56.81 
subtype1 subtype2 subtype3 
   38.73     3.39     8.09 
[1] "2.0 - 48.6 (38.7)" "0.5 - 37.0 (3.4)"  "4.0 - 56.8 (8.1)" 
 [1] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[13] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[31] "subtype2"
 [1] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[13] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[31] "subtype2"
 [1] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[13] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[31] "subtype2"
D2V2, continuous
D2V3, binary
          cls
clus       0 1
  subtype1 4 3
  subtype2 9 4
  subtype3 5 7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4    3
  subtype2    9    4
  subtype3    5    7
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        4        9        5
  MALE          3        4        7
D2V4, continuous
[1] "Remove cluster labels:" "subtype1"               "subtype3"              
clus
subtype1 subtype3 
       1        2 
character(0)
          vv
clus       LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                                 0
  subtype2                                 1
  subtype3                                 0
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                  6
  subtype2                                                 12
  subtype3                                                 12
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA
  subtype1                              1
  subtype2                              0
  subtype3                              0
D2V5, multiclass
          vv
clus       T1 T2 T3
  subtype1  2  5  0
  subtype2  4  9  0
  subtype3  6  5  1
D2V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1  4  1     2
  subtype2 10  1     1
  subtype3  9  2     1
D2V7, multiclass
          vv
clus       M0 M1
  subtype1  7  0
  subtype2 12  1
  subtype3 11  1
D2V8, multiclass
    clus
vv   subtype1 subtype2 subtype3
  M0        7       12       11
  M1        0        1        1
          vv
clus        I II III IV
  subtype1  3  2   2  0
  subtype2 11  1   0  1
  subtype3  9  1   1  1
D2V9, multiclass
D2V10, binary
          cls
clus        0  1
  subtype1  0  7
  subtype2  1 12
  subtype3  0 12
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0    7
  subtype2    1   12
  subtype3    0   12
     clus
vv    subtype1 subtype2 subtype3
  NO         0        1        0
  YES        7       12       12
D2V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                           3
  subtype2                                           3
  subtype3                                           6
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                      1              3
  subtype2                                      6              1
  subtype3                                      3              1
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   0
  subtype2                   3
  subtype3                   2
D2V12, multiclass
D2V13, continuous
          vv
clus       R0 R2 RX
  subtype1  6  0  0
  subtype2 10  0  0
  subtype3 10  1  1
D2V14, multiclass

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1  72  28
  subtype2 101  29
  subtype3  43  20
  subtype4  30   8
subtype1 subtype2 subtype3 subtype4 
     100      130       63       38 
subtype1 subtype2 subtype3 subtype4 
      28       29       20        8 
$subtype1
TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4420 TCGA-05-4426 TCGA-05-5423 
       47.05         8.02        20.05        29.95        26.01         4.96 
TCGA-05-5715 TCGA-35-4123 TCGA-38-4629 TCGA-38-4632 TCGA-38-6178 TCGA-44-2656 
        2.04         5.95        28.37        44.61         5.19        19.10 
TCGA-44-2659 TCGA-44-2662 TCGA-44-3919 TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 
       17.39        15.78         6.21         4.60         2.70        32.45 
TCGA-44-7662 TCGA-44-8117 TCGA-49-4488 TCGA-49-4490 TCGA-49-4501 TCGA-49-4505 
        1.64         8.52        28.57        12.66        46.72        14.07 
TCGA-49-4512 TCGA-49-6761 TCGA-50-5066 TCGA-50-5930 TCGA-50-5933 TCGA-50-5941 
       29.75         0.03         9.76         9.27        77.88         9.37 
TCGA-50-5944 TCGA-50-5946 TCGA-50-6591 TCGA-50-6593 TCGA-50-6594 TCGA-50-6597 
       12.26        11.47         3.88        11.05        12.16        33.37 
TCGA-55-1592 TCGA-55-1595 TCGA-55-6543 TCGA-55-6712 TCGA-55-6972 TCGA-55-6979 
       23.05        48.62         0.07         0.79        48.49         7.76 
TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6985 TCGA-55-7573 TCGA-55-7727 
        2.20        45.34        32.71        40.54         0.13         1.02 
TCGA-55-7903 TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 TCGA-55-8616 TCGA-55-A48Z 
        0.62         7.46         0.30         6.97         1.58         0.95 
TCGA-55-A490 TCGA-55-A4DG TCGA-62-8399 TCGA-62-A46O TCGA-62-A472 TCGA-64-1676 
        1.58         5.29        68.81        47.77        17.75        56.81 
TCGA-64-1679 TCGA-64-1681 TCGA-64-5778 TCGA-67-3770 TCGA-67-6217 TCGA-69-7979 
       55.40        44.38        30.44         0.99        13.87         2.93 
TCGA-71-6725 TCGA-73-4668 TCGA-73-4676 TCGA-73-7499 TCGA-78-7143 TCGA-78-7145 
        2.01        15.35         4.01        17.06       163.10        27.16 
TCGA-78-7147 TCGA-78-7155 TCGA-78-7163 TCGA-78-7535 TCGA-78-7539 TCGA-78-7542 
       19.27        38.50       223.96        31.20        10.75        10.55 
TCGA-83-5908 TCGA-86-7711 TCGA-86-8054 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 
       13.81         0.89         0.62         0.33         0.79         1.41 
TCGA-86-8279 TCGA-86-8280 TCGA-86-8668 TCGA-91-6829 TCGA-91-6847 TCGA-91-6848 
        0.69         0.53         1.45        41.33        26.93         4.18 
TCGA-95-7039 TCGA-95-7947 TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-99-8025 
        1.12         1.32         8.65         5.95         0.59        14.04 
TCGA-J2-8192 TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 
        5.03         3.72         9.44         6.97 

$subtype2
TCGA-05-4249 TCGA-05-4384 TCGA-05-4396 TCGA-05-4397 TCGA-05-4430 TCGA-05-4434 
       38.07        14.01         9.96        24.03        25.02        15.02 
TCGA-05-5420 TCGA-05-5429 TCGA-35-3615 TCGA-38-4626 TCGA-38-4627 TCGA-38-7271 
        1.02         0.99         0.46        85.32        37.71        26.30 
TCGA-38-A44F TCGA-44-2655 TCGA-44-2657 TCGA-44-2661 TCGA-44-2665 TCGA-44-2666 
        4.37        18.87        13.15         3.39        13.15         3.19 
TCGA-44-3396 TCGA-44-3398 TCGA-44-5645 TCGA-44-6144 TCGA-44-6145 TCGA-44-6146 
       10.22         8.32         6.84         0.30         3.35         9.93 
TCGA-44-6148 TCGA-44-6776 TCGA-44-7659 TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 
        3.12        63.72         9.80         5.03        17.59        13.74 
TCGA-49-4486 TCGA-49-4487 TCGA-49-4494 TCGA-49-4506 TCGA-49-4514 TCGA-49-6742 
       76.21        28.11        35.54        32.84        43.20        15.02 
TCGA-49-6743 TCGA-49-6744 TCGA-49-6745 TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 
       12.13        12.99         4.93        20.48        71.47        48.82 
TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5939 TCGA-50-5942 TCGA-50-6590 
       25.81        49.28        35.87        15.12         4.44        42.31 
TCGA-50-6595 TCGA-50-6673 TCGA-53-7626 TCGA-55-6642 TCGA-55-6975 TCGA-55-6978 
        6.21         0.72        31.89        32.61         3.88         5.46 
TCGA-55-6983 TCGA-55-6984 TCGA-55-6986 TCGA-55-6987 TCGA-55-7281 TCGA-55-7283 
       60.03        24.99        71.05        38.47         0.59         1.12 
TCGA-55-7574 TCGA-55-7725 TCGA-55-7728 TCGA-55-7815 TCGA-55-7911 TCGA-55-7914 
        3.12         1.28         0.79         1.78         0.69         0.10 
TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8097 TCGA-55-8299 TCGA-55-8301 
        0.69         3.02         0.20         0.49         7.07         1.41 
TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 TCGA-55-8620 TCGA-55-8621 TCGA-55-A48X 
        0.10         4.80         1.61         2.14         3.45         1.08 
TCGA-55-A48Y TCGA-55-A492 TCGA-64-1680 TCGA-64-5781 TCGA-64-5815 TCGA-67-3772 
        1.02         0.03        37.02        39.52         7.33         0.59 
TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 TCGA-69-7761 TCGA-69-7763 
        2.04         0.59         0.89         0.69         6.12        22.68 
TCGA-69-7765 TCGA-69-7974 TCGA-69-7978 TCGA-69-8253 TCGA-69-8254 TCGA-73-4658 
        4.24         6.05         2.30         3.25         2.50        52.57 
TCGA-73-4677 TCGA-73-7498 TCGA-78-7152 TCGA-78-7153 TCGA-78-7156 TCGA-78-7158 
        1.25        20.42        39.48        24.99        32.09         5.88 
TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 
       22.29       104.15         8.48        53.33        28.96        32.68 
TCGA-86-8076 TCGA-86-8278 TCGA-86-8671 TCGA-86-A4P8 TCGA-91-6830 TCGA-91-6835 
        0.85         0.76         0.56         1.28         0.03         1.15 
TCGA-91-6849 TCGA-93-7347 TCGA-93-7348 TCGA-95-7944 TCGA-97-7546 TCGA-97-7547 
        0.92         9.76         4.18         0.69        31.66        47.18 
TCGA-97-7552 TCGA-97-7553 TCGA-97-7941 TCGA-97-8174 TCGA-97-8177 TCGA-99-7458 
       48.53        43.76         0.72         5.36         4.80         8.22 
TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
       15.06         9.27         7.82         2.50 

$subtype3
TCGA-05-4250 TCGA-05-4382 TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 TCGA-05-4427 
        3.98        19.92         2.96        14.93         8.98        26.01 
TCGA-05-4432 TCGA-05-4433 TCGA-05-5425 TCGA-35-4122 TCGA-38-4628 TCGA-38-4630 
       25.02        24.00         2.96         7.36        49.02        35.28 
TCGA-38-4631 TCGA-44-2668 TCGA-44-5643 TCGA-44-5644 TCGA-44-6779 TCGA-44-7660 
       11.64         8.09         3.48        16.37        16.41         5.33 
TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 TCGA-49-4507 TCGA-49-4510 TCGA-50-5072 
       18.31        18.87        17.46         8.81        29.46         8.05 
TCGA-50-5931 TCGA-50-5936 TCGA-50-6592 TCGA-53-7624 TCGA-53-7813 TCGA-55-1594 
        8.78         8.45        25.51        35.11        13.74        38.73 
TCGA-55-1596 TCGA-55-6971 TCGA-55-7576 TCGA-55-7726 TCGA-55-7907 TCGA-55-7910 
       45.17         0.92         1.32         1.02         0.53         6.48 
TCGA-55-8092 TCGA-55-8094 TCGA-55-8615 TCGA-55-A493 TCGA-64-1678 TCGA-64-5775 
        0.85         0.13         0.49         0.92        39.09         0.10 
TCGA-67-3771 TCGA-69-7760 TCGA-69-7980 TCGA-69-8255 TCGA-73-4662 TCGA-73-4666 
        1.97         5.06        12.56         4.21        29.95        20.28 
TCGA-73-4670 TCGA-78-7146 TCGA-78-7148 TCGA-78-7150 TCGA-78-7154 TCGA-78-7161 
        0.46         5.65        20.58        21.86        19.50         7.04 
TCGA-78-7167 TCGA-78-7220 TCGA-86-7713 TCGA-86-7953 TCGA-91-6836 TCGA-91-7771 
       88.11        26.53         0.23         1.12         0.36         1.02 
TCGA-93-8067 TCGA-95-7567 TCGA-99-8033 
        6.08         5.36         5.56 

$subtype4
TCGA-05-4390 TCGA-05-4424 TCGA-35-5375 TCGA-38-4625 TCGA-44-3918 TCGA-44-6147 
       37.02        30.02         8.68        47.61         6.44         7.76 
TCGA-44-6774 TCGA-44-6778 TCGA-44-8119 TCGA-50-5051 TCGA-50-5935 TCGA-50-7109 
        5.42        36.49         3.22        14.96        21.47         8.38 
TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 TCGA-55-A494 TCGA-62-A46P 
        2.86        42.48        40.70        15.25         0.16        19.53 
TCGA-62-A470 TCGA-64-1677 TCGA-64-5774 TCGA-64-5779 TCGA-69-7764 TCGA-69-7973 
       39.22        20.65        83.84        16.67        13.61         7.56 
TCGA-73-4659 TCGA-73-4675 TCGA-78-7149 TCGA-78-7159 TCGA-78-7536 TCGA-86-7701 
       23.38         1.32        35.93        40.11         8.02         0.36 
TCGA-86-8585 TCGA-91-6828 TCGA-91-6831 TCGA-95-7043 TCGA-95-7948 TCGA-97-8172 
        1.12         1.22         1.28         0.07         4.34         5.95 
TCGA-97-8179 TCGA-99-8032 
        0.49         1.45 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.03     0.10     0.07 
subtype1 subtype2 subtype3 subtype4 
  223.96   104.15    88.11    83.84 
subtype1 subtype2 subtype3 subtype4 
    9.60     7.20     8.45     8.53 
[1] "0.0 - 224.0 (9.6)" "0.0 - 104.2 (7.2)" "0.1 - 88.1 (8.4)" 
[4] "0.1 - 83.8 (8.5)" 
  [1] "subtype2" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype4" "subtype1" "subtype3" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [25] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
 [31] "subtype4" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
 [67] "subtype1" "subtype4" "subtype3" "subtype2" "subtype3" "subtype2"
 [73] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [79] "subtype1" "subtype4" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [91] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[103] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[109] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[127] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype4" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[163] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
[193] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype1"
[199] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[205] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[223] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[235] "subtype3" "subtype3" "subtype1" "subtype3" "subtype4" "subtype1"
[241] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[247] "subtype1" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[259] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[265] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[283] "subtype1" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
[289] "subtype4" "subtype1" "subtype2" "subtype4" "subtype2" "subtype3"
[295] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[301] "subtype3" "subtype1" "subtype4" "subtype3" "subtype2" "subtype1"
[307] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[319] "subtype4" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[325] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[331] "subtype2"
  [1] "subtype2" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype4" "subtype1" "subtype3" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [25] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
 [31] "subtype4" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
 [67] "subtype1" "subtype4" "subtype3" "subtype2" "subtype3" "subtype2"
 [73] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [79] "subtype1" "subtype4" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [91] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[103] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[109] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[127] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype4" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[163] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
[193] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype1"
[199] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[205] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[223] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[235] "subtype3" "subtype3" "subtype1" "subtype3" "subtype4" "subtype1"
[241] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[247] "subtype1" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[259] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[265] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[283] "subtype1" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
[289] "subtype4" "subtype1" "subtype2" "subtype4" "subtype2" "subtype3"
[295] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[301] "subtype3" "subtype1" "subtype4" "subtype3" "subtype2" "subtype1"
[307] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[319] "subtype4" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[325] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[331] "subtype2"
  [1] "subtype2" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype4" "subtype1" "subtype3" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [25] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype4"
 [31] "subtype4" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
 [67] "subtype1" "subtype4" "subtype3" "subtype2" "subtype3" "subtype2"
 [73] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [79] "subtype1" "subtype4" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [91] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[103] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[109] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[127] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype4" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[163] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
[193] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype1"
[199] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[205] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[223] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[229] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[235] "subtype3" "subtype3" "subtype1" "subtype3" "subtype4" "subtype1"
[241] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[247] "subtype1" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[259] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[265] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[283] "subtype1" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
[289] "subtype4" "subtype1" "subtype2" "subtype4" "subtype2" "subtype3"
[295] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[301] "subtype3" "subtype1" "subtype4" "subtype3" "subtype2" "subtype1"
[307] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[319] "subtype4" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[325] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[331] "subtype2"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 68 45
  subtype2 83 61
  subtype3 35 36
  subtype4 17 25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   68   45
  subtype2   83   61
  subtype3   35   36
  subtype4   17   25
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       68       83       35       17
  MALE         45       61       36       25
D3V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          3                                21
  subtype2                          3                                33
  subtype3                          1                                14
  subtype4                          4                                10
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 70
  subtype2                                                 82
  subtype3                                                 50
  subtype4                                                 26
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          2
  subtype3                                          0
  subtype4                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             8
  subtype2                                             6
  subtype3                                             2
  subtype4                                             0
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  2
  subtype2                              1                                  1
  subtype3                              0                                  0
  subtype4                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             5
  subtype2                            2                             8
  subtype3                            0                             2
  subtype4                            0                             1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             1
  subtype4                                             1
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 0
  subtype2                                 6
  subtype3                                 1
  subtype4                                 0
D3V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 32 70  7  4
  subtype2 53 73  9  8
  subtype3 12 43 11  4
  subtype4 16 22  3  1
D3V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 69 21    21
  subtype2 90 32    18
  subtype3 43 16    11
  subtype4 30  2     8
D3V7, multiclass
          vv
clus       M0 M1 M1B MX
  subtype1 73  6   0 32
  subtype2 93  4   2 41
  subtype3 48  5   1 15
  subtype4 33  2   0  7
D3V8, multiclass
          vv
clus        I II III IV
  subtype1 60 23  22  6
  subtype2 81 34  18  7
  subtype3 28 22  15  6
  subtype4 29  2  10  1
D3V9, multiclass
D3V10, binary
          cls
clus         0   1
  subtype1   5 108
  subtype2   7 137
  subtype3   5  66
  subtype4   3  39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  108
  subtype2    7  137
  subtype3    5   66
  subtype4    3   39
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         5        7        5        3
  YES      108      137       66       39
D3V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          38
  subtype2                                          45
  subtype3                                          27
  subtype4                                          15
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     25             27
  subtype2                                     46             21
  subtype3                                     10             25
  subtype4                                     13             11
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  20
  subtype2                  25
  subtype3                   7
  subtype4                   2
D3V12, multiclass
D3V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 67  3  1  5
  subtype2 82  3  2  5
  subtype3 46  2  1  2
  subtype4 23  1  0  1
D3V14, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 47 11
  subtype2 43 21
  subtype3 51  9
  subtype4 53 17
  subtype5 13  6
subtype1 subtype2 subtype3 subtype4 subtype5 
      58       64       60       70       19 
subtype1 subtype2 subtype3 subtype4 subtype5 
      11       21        9       17        6 
$subtype1
TCGA-05-4384 TCGA-05-5423 TCGA-05-5715 TCGA-44-5645 TCGA-44-6146 TCGA-44-6148 
       14.01         4.96         2.04         6.84         9.93         3.12 
TCGA-44-6775 TCGA-44-6776 TCGA-44-7659 TCGA-44-7671 TCGA-49-4512 TCGA-50-5932 
        2.70        63.72         9.80        17.59        29.75        35.87 
TCGA-50-5935 TCGA-50-5942 TCGA-50-5944 TCGA-50-6594 TCGA-53-7626 TCGA-55-6543 
       21.47         4.44        12.26        12.16        31.89         0.07 
TCGA-55-6972 TCGA-55-6983 TCGA-55-6986 TCGA-55-7573 TCGA-55-7725 TCGA-55-8087 
       48.49        60.03        71.05         0.13         1.28         0.69 
TCGA-55-8097 TCGA-55-8512 TCGA-55-8513 TCGA-55-A492 TCGA-67-6215 TCGA-67-6216 
        0.49         0.10         4.80         0.03         0.89         0.69 
TCGA-67-6217 TCGA-69-7760 TCGA-69-7763 TCGA-69-7764 TCGA-69-8253 TCGA-69-8254 
       13.87         5.06        22.68        13.61         3.25         2.50 
TCGA-73-7498 TCGA-78-7143 TCGA-78-7156 TCGA-78-7158 TCGA-78-7162 TCGA-78-7163 
       20.42       163.10        32.09         5.88       104.15       223.96 
TCGA-78-7537 TCGA-86-8075 TCGA-86-8280 TCGA-86-8668 TCGA-91-6849 TCGA-93-7348 
       53.33         1.41         0.53         1.45         0.92         4.18 
TCGA-95-7948 TCGA-97-7546 TCGA-97-7547 TCGA-97-7938 TCGA-97-7941 TCGA-97-8172 
        4.34        31.66        47.18         0.59         0.72         5.95 
TCGA-97-8174 TCGA-97-8177 TCGA-99-7458 TCGA-J2-A4AE 
        5.36         4.80         8.22         9.27 

$subtype2
TCGA-05-4390 TCGA-05-4396 TCGA-05-4415 TCGA-05-4424 TCGA-05-5425 TCGA-35-5375 
       37.02         9.96         2.96        30.02         2.96         8.68 
TCGA-38-4631 TCGA-44-5644 TCGA-44-6144 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 
       11.64        16.37         0.30         5.33        18.31        18.87 
TCGA-44-7670 TCGA-44-8119 TCGA-49-6742 TCGA-50-5051 TCGA-50-5072 TCGA-50-5931 
       17.46         3.22        15.02        14.96         8.05         8.78 
TCGA-50-5936 TCGA-50-5946 TCGA-50-6591 TCGA-50-6673 TCGA-50-7109 TCGA-53-7624 
        8.45        11.47         3.88         0.72         8.38        35.11 
TCGA-53-7813 TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 TCGA-55-6970 TCGA-55-7910 
       13.74         2.86        32.61        42.48        15.25         6.48 
TCGA-55-8094 TCGA-55-8615 TCGA-55-8620 TCGA-55-A48Y TCGA-55-A490 TCGA-55-A494 
        0.13         0.49         2.14         1.02         1.58         0.16 
TCGA-62-8399 TCGA-62-A46O TCGA-62-A470 TCGA-64-5774 TCGA-64-5779 TCGA-69-7973 
       68.81        47.77        39.22        83.84        16.67         7.56 
TCGA-78-7146 TCGA-78-7148 TCGA-78-7149 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 
        5.65        20.58        35.93        21.86        19.50        38.50 
TCGA-78-7159 TCGA-78-7161 TCGA-78-7166 TCGA-78-7167 TCGA-78-7220 TCGA-78-7536 
       40.11         7.04         8.48        88.11        26.53         8.02 
TCGA-78-7633 TCGA-86-7713 TCGA-86-8054 TCGA-91-6831 TCGA-91-6847 TCGA-91-7771 
       32.68         0.23         0.62         1.28        26.93         1.02 
TCGA-95-7043 TCGA-99-8032 TCGA-J2-8194 TCGA-J2-A4AD 
        0.07         1.45         3.72         9.44 

$subtype3
TCGA-05-4405 TCGA-05-4417 TCGA-05-4427 TCGA-05-4433 TCGA-05-5429 TCGA-38-4632 
       20.05        14.93        26.01        24.00         0.99        44.61 
TCGA-38-6178 TCGA-44-6147 TCGA-44-7662 TCGA-44-7672 TCGA-44-8117 TCGA-49-6745 
        5.19         7.76         1.64        13.74         8.52         4.93 
TCGA-49-6761 TCGA-50-5933 TCGA-50-6593 TCGA-50-6597 TCGA-55-6712 TCGA-55-6982 
        0.03        77.88        11.05        33.37         0.79        32.71 
TCGA-55-6985 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7576 TCGA-55-7727 
       40.54         2.01         0.59         1.12         1.32         1.02 
TCGA-55-7815 TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 TCGA-55-7914 TCGA-55-8090 
        1.78         0.62         0.53         0.69         0.10         0.20 
TCGA-55-8092 TCGA-55-8511 TCGA-55-8616 TCGA-55-A4DG TCGA-62-A46P TCGA-62-A472 
        0.85         0.30         1.58         5.29        19.53        17.75 
TCGA-64-5775 TCGA-64-5815 TCGA-69-7765 TCGA-69-7974 TCGA-71-6725 TCGA-73-4658 
        0.10         7.33         4.24         6.05         2.01        52.57 
TCGA-73-4676 TCGA-78-7152 TCGA-78-7153 TCGA-78-7535 TCGA-78-7539 TCGA-78-7540 
        4.01        39.48        24.99        31.20        10.75        28.96 
TCGA-78-7542 TCGA-83-5908 TCGA-86-7701 TCGA-86-8278 TCGA-91-6828 TCGA-91-6836 
       10.55        13.81         0.36         0.76         1.22         0.36 
TCGA-93-8067 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-99-8025 
        6.08         1.12         5.36         8.65         5.95        14.04 

$subtype4
TCGA-05-5420 TCGA-38-7271 TCGA-38-A44F TCGA-44-5643 TCGA-44-6145 TCGA-44-6774 
        1.02        26.30         4.37         3.48         3.35         5.42 
TCGA-44-6777 TCGA-44-6778 TCGA-44-6779 TCGA-44-7661 TCGA-49-4487 TCGA-49-4514 
       32.45        36.49        16.41         5.03        28.11        43.20 
TCGA-49-6743 TCGA-49-6744 TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 
       12.13        12.99        20.48        71.47        48.82        25.81 
TCGA-50-5066 TCGA-50-5068 TCGA-50-5930 TCGA-50-5939 TCGA-50-5941 TCGA-50-6590 
        9.76        49.28         9.27        15.12         9.37        42.31 
TCGA-50-6592 TCGA-50-6595 TCGA-55-6969 TCGA-55-6971 TCGA-55-6975 TCGA-55-6978 
       25.51         6.21        40.70         0.92         3.88         5.46 
TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6984 TCGA-55-6987 TCGA-55-7574 
        7.76         2.20        45.34        24.99        38.47         3.12 
TCGA-55-7726 TCGA-55-7728 TCGA-55-7816 TCGA-55-8089 TCGA-55-8299 TCGA-55-8301 
        1.02         0.79         1.02         3.02         7.07         1.41 
TCGA-55-8510 TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X TCGA-55-A493 TCGA-64-1679 
        7.46         1.61         3.45         1.08         0.92        55.40 
TCGA-64-5781 TCGA-69-7761 TCGA-69-7978 TCGA-69-8255 TCGA-78-7160 TCGA-86-7711 
       39.52         6.12         2.30         4.21        22.29         0.89 
TCGA-86-7953 TCGA-86-8076 TCGA-86-8585 TCGA-86-8671 TCGA-86-A4P8 TCGA-91-6830 
        1.12         0.85         1.12         0.56         1.28         0.03 
TCGA-91-6835 TCGA-91-6848 TCGA-93-7347 TCGA-95-7944 TCGA-97-7552 TCGA-97-7553 
        1.15         4.18         9.76         0.69        48.53        43.76 
TCGA-99-8028 TCGA-99-8033 TCGA-J2-A4AG TCGA-L4-A4E6 
       15.06         5.56         7.82         2.50 

$subtype5
TCGA-49-4488 TCGA-49-4490 TCGA-55-8514 TCGA-55-A48Z TCGA-64-1681 TCGA-64-5778 
       28.57        12.66         6.97         0.95        44.38        30.44 
TCGA-69-7979 TCGA-69-7980 TCGA-73-7499 TCGA-78-7145 TCGA-78-7147 TCGA-86-8055 
        2.93        12.56        17.06        27.16        19.27         0.33 
TCGA-86-8074 TCGA-86-8279 TCGA-91-6829 TCGA-95-7947 TCGA-97-8179 TCGA-J2-8192 
        0.79         0.69        41.33         1.32         0.49         5.03 
TCGA-L4-A4E5 
        6.97 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.03     0.07     0.03     0.03     0.33 
subtype1 subtype2 subtype3 subtype4 subtype5 
  223.96    88.11    77.88    71.47    44.38 
subtype1 subtype2 subtype3 subtype4 subtype5 
   5.915    9.110    5.325    6.165    6.970 
[1] "0.0 - 224.0 (5.9)" "0.1 - 88.1 (9.1)"  "0.0 - 77.9 (5.3)" 
[4] "0.0 - 71.5 (6.2)"  "0.3 - 44.4 (7.0)" 
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype4" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [19] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
 [25] "subtype4" "subtype1" "subtype3" "subtype1" "subtype4" "subtype1"
 [31] "subtype1" "subtype4" "subtype4" "subtype4" "subtype1" "subtype2"
 [37] "subtype4" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype2" "subtype4" "subtype5" "subtype5"
 [49] "subtype1" "subtype4" "subtype2" "subtype4" "subtype4" "subtype3"
 [55] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [67] "subtype3" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
 [73] "subtype1" "subtype2" "subtype4" "subtype2" "subtype4" "subtype3"
 [79] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype4"
 [97] "subtype4" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
[103] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype4"
[115] "subtype3" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype3" "subtype1" "subtype1" "subtype5" "subtype2" "subtype3"
[139] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype5"
[145] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[157] "subtype2" "subtype3" "subtype5" "subtype2" "subtype4" "subtype3"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[175] "subtype5" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[181] "subtype3" "subtype1" "subtype5" "subtype1" "subtype5" "subtype2"
[187] "subtype5" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[199] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[217] "subtype2" "subtype5" "subtype5" "subtype1" "subtype4" "subtype3"
[223] "subtype5" "subtype1" "subtype4" "subtype1" "subtype4" "subtype4"
[229] "subtype3" "subtype5" "subtype4" "subtype2" "subtype4" "subtype3"
[235] "subtype2" "subtype4" "subtype1" "subtype2" "subtype4" "subtype1"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[247] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype3"
[253] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[259] "subtype5" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
[265] "subtype5" "subtype2" "subtype2" "subtype1" "subtype4" "subtype5"
[271] "subtype4"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype4" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [19] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
 [25] "subtype4" "subtype1" "subtype3" "subtype1" "subtype4" "subtype1"
 [31] "subtype1" "subtype4" "subtype4" "subtype4" "subtype1" "subtype2"
 [37] "subtype4" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype2" "subtype4" "subtype5" "subtype5"
 [49] "subtype1" "subtype4" "subtype2" "subtype4" "subtype4" "subtype3"
 [55] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [67] "subtype3" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
 [73] "subtype1" "subtype2" "subtype4" "subtype2" "subtype4" "subtype3"
 [79] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype4"
 [97] "subtype4" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
[103] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype4"
[115] "subtype3" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype3" "subtype1" "subtype1" "subtype5" "subtype2" "subtype3"
[139] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype5"
[145] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[157] "subtype2" "subtype3" "subtype5" "subtype2" "subtype4" "subtype3"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[175] "subtype5" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[181] "subtype3" "subtype1" "subtype5" "subtype1" "subtype5" "subtype2"
[187] "subtype5" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[199] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[217] "subtype2" "subtype5" "subtype5" "subtype1" "subtype4" "subtype3"
[223] "subtype5" "subtype1" "subtype4" "subtype1" "subtype4" "subtype4"
[229] "subtype3" "subtype5" "subtype4" "subtype2" "subtype4" "subtype3"
[235] "subtype2" "subtype4" "subtype1" "subtype2" "subtype4" "subtype1"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[247] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype3"
[253] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[259] "subtype5" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
[265] "subtype5" "subtype2" "subtype2" "subtype1" "subtype4" "subtype5"
[271] "subtype4"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype4" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [19] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
 [25] "subtype4" "subtype1" "subtype3" "subtype1" "subtype4" "subtype1"
 [31] "subtype1" "subtype4" "subtype4" "subtype4" "subtype1" "subtype2"
 [37] "subtype4" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype2" "subtype4" "subtype5" "subtype5"
 [49] "subtype1" "subtype4" "subtype2" "subtype4" "subtype4" "subtype3"
 [55] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [67] "subtype3" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
 [73] "subtype1" "subtype2" "subtype4" "subtype2" "subtype4" "subtype3"
 [79] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype4"
 [97] "subtype4" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
[103] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype4"
[115] "subtype3" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype3" "subtype1" "subtype1" "subtype5" "subtype2" "subtype3"
[139] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype5"
[145] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[157] "subtype2" "subtype3" "subtype5" "subtype2" "subtype4" "subtype3"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[169] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[175] "subtype5" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[181] "subtype3" "subtype1" "subtype5" "subtype1" "subtype5" "subtype2"
[187] "subtype5" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[199] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[217] "subtype2" "subtype5" "subtype5" "subtype1" "subtype4" "subtype3"
[223] "subtype5" "subtype1" "subtype4" "subtype1" "subtype4" "subtype4"
[229] "subtype3" "subtype5" "subtype4" "subtype2" "subtype4" "subtype3"
[235] "subtype2" "subtype4" "subtype1" "subtype2" "subtype4" "subtype1"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[247] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype3"
[253] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[259] "subtype5" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
[265] "subtype5" "subtype2" "subtype2" "subtype1" "subtype4" "subtype5"
[271] "subtype4"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 43 22
  subtype2 28 45
  subtype3 33 35
  subtype4 49 28
  subtype5 14  7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   43   22
  subtype2   28   45
  subtype3   33   35
  subtype4   49   28
  subtype5   14    7
D4V4, continuous
[1] "Remove cluster labels:" "subtype5"              
clus
subtype1 subtype2 subtype3 subtype4 subtype5 
       6        3        7        3        2 
 [1] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
 [7] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
[13] "subtype4" "subtype2" "subtype1" "subtype4" "subtype1" "subtype1"
[19] "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                15
  subtype2                          3                                16
  subtype3                          0                                18
  subtype4                          1                                11
  subtype5                          2                                 3
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 28
  subtype2                                                 46
  subtype3                                                 42
  subtype4                                                 51
  subtype5                                                 13
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          1
  subtype4                                          1
  subtype5                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             7
  subtype2                                             1
  subtype3                                             2
  subtype4                                             4
  subtype5                                             2
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              0                                  0
  subtype3                              0                                  1
  subtype4                              1                                  0
  subtype5                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             3
  subtype2                            0                             4
  subtype3                            0                             3
  subtype4                            0                             4
  subtype5                            0                             1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             1
  subtype3                                             0
  subtype4                                             2
  subtype5                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 2
  subtype2                                 2
  subtype3                                 1
  subtype4                                 2
  subtype5                                 0
D4V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 25 31  5  3
  subtype2 17 43  8  5
  subtype3 16 42  7  3
  subtype4 30 39  4  2
  subtype5  8 11  1  1
D4V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 46 10     7
  subtype2 45 12    14
  subtype3 41 14    12
  subtype4 47 14    13
  subtype5 12  7     2
D4V7, multiclass
          vv
clus       M0 M1 M1B MX
  subtype1 40  1   1 20
  subtype2 47  4   2 19
  subtype3 39  3   0 23
  subtype4 47  2   0 28
  subtype5 13  1   0  7
D4V8, multiclass
          vv
clus        I II III IV
  subtype1 38 14   8  2
  subtype2 33 17  18  5
  subtype3 33 15  13  4
  subtype4 45 16  13  3
  subtype5 12  5   3  1
D4V9, multiclass
D4V10, binary
          cls
clus        0  1
  subtype1  2 63
  subtype2  4 69
  subtype3  3 65
  subtype4  6 71
  subtype5  1 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   63
  subtype2    4   69
  subtype3    3   65
  subtype4    6   71
  subtype5    1   20
D4V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          17
  subtype2                                          27
  subtype3                                          25
  subtype4                                          26
  subtype5                                           7
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     24              5
  subtype2                                     14             27
  subtype3                                     16             18
  subtype4                                     17             14
  subtype5                                      5              4
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  16
  subtype2                   3
  subtype3                   8
  subtype4                  13
  subtype5                   5
D4V12, multiclass
D4V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 31  1  0  3
  subtype2 42  2  0  2
  subtype3 39  2  0  3
  subtype4 35  1  1  3
  subtype5 14  1  0  0
D4V14, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 46 25
  subtype2 54 17
  subtype3 47 24
subtype1 subtype2 subtype3 
      71       71       71 
subtype1 subtype2 subtype3 
      25       17       24 
$subtype1
TCGA-05-4250 TCGA-05-4384 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 
        3.98        14.01         9.96        24.03        47.05         8.02 
TCGA-05-4405 TCGA-05-4417 TCGA-05-4430 TCGA-05-4434 TCGA-05-5423 TCGA-05-5429 
       20.05        14.93        25.02        15.02         4.96         0.99 
TCGA-38-6178 TCGA-44-2656 TCGA-44-2661 TCGA-44-2664 TCGA-44-2665 TCGA-44-3918 
        5.19        19.10         3.39        12.59        13.15         6.44 
TCGA-44-3919 TCGA-44-5645 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 TCGA-44-6775 
        6.21         6.84         3.35         9.93         7.76         2.70 
TCGA-44-6777 TCGA-49-4488 TCGA-49-4501 TCGA-49-4505 TCGA-49-4512 TCGA-49-6743 
       32.45        28.57        46.72        14.07        29.75        12.13 
TCGA-49-6745 TCGA-50-5045 TCGA-50-5049 TCGA-50-5066 TCGA-50-5068 TCGA-50-5936 
        4.93        71.47        48.82         9.76        49.28         8.45 
TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 
       15.12         9.37         4.44        12.26        11.05        33.37 
TCGA-50-6673 TCGA-55-1592 TCGA-55-1596 TCGA-55-6712 TCGA-55-6979 TCGA-55-6981 
        0.72        23.05        45.17         0.79         7.76        45.34 
TCGA-55-6982 TCGA-55-7573 TCGA-55-7911 TCGA-64-1679 TCGA-64-1680 TCGA-64-1681 
       32.71         0.13         0.69        55.40        37.02        44.38 
TCGA-64-5778 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7760 TCGA-73-4675 
       30.44         0.89         0.69        13.87         5.06         1.32 
TCGA-73-4676 TCGA-78-7143 TCGA-78-7145 TCGA-78-7535 TCGA-83-5908 TCGA-91-6828 
        4.01       163.10        27.16        31.20        13.81         1.22 
TCGA-91-6829 TCGA-91-6830 TCGA-91-6835 TCGA-95-7039 TCGA-95-7948 
       41.33         0.03         1.15         1.12         4.34 

$subtype2
TCGA-05-4249 TCGA-05-4426 TCGA-05-5420 TCGA-05-5425 TCGA-35-3615 TCGA-38-4626 
       38.07        26.01         1.02         2.96         0.46        85.32 
TCGA-38-4627 TCGA-44-2657 TCGA-44-3396 TCGA-44-3398 TCGA-44-6774 TCGA-44-6776 
       37.71        13.15        10.22         8.32         5.42        63.72 
TCGA-44-7659 TCGA-44-7661 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-49-4486 
        9.80         5.03        17.46        17.59        13.74        76.21 
TCGA-49-4510 TCGA-49-6742 TCGA-49-6744 TCGA-50-5051 TCGA-50-5930 TCGA-50-5932 
       29.46        15.02        12.99        14.96         9.27        35.87 
TCGA-50-7109 TCGA-53-7626 TCGA-53-7813 TCGA-55-6543 TCGA-55-6970 TCGA-55-7574 
        8.38        31.89        13.74         0.07        15.25         3.12 
TCGA-55-7728 TCGA-55-7815 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 
        0.79         1.78         6.12        22.68        13.61         4.24 
TCGA-73-4658 TCGA-73-4659 TCGA-73-4670 TCGA-73-7498 TCGA-73-7499 TCGA-78-7147 
       52.57        23.38         0.46        20.42        17.06        19.27 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 
       20.58        35.93        39.48        32.09         5.88        22.29 
TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 TCGA-78-7166 TCGA-78-7167 TCGA-78-7537 
        7.04       104.15       223.96         8.48        88.11        53.33 
TCGA-78-7539 TCGA-78-7540 TCGA-78-7633 TCGA-86-7713 TCGA-91-6849 TCGA-91-7771 
       10.75        28.96        32.68         0.23         0.92         1.02 
TCGA-93-7348 TCGA-95-7944 TCGA-95-7947 TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 
        4.18         0.69         1.32        31.66        48.53        43.76 
TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-99-7458 
        8.65         5.95         0.59         0.72         8.22 

$subtype3
TCGA-05-4418 TCGA-05-4420 TCGA-05-4427 TCGA-05-5715 TCGA-35-4122 TCGA-35-4123 
        8.98        29.95        26.01         2.04         7.36         5.95 
TCGA-35-5375 TCGA-38-4625 TCGA-38-4629 TCGA-44-2668 TCGA-44-3917 TCGA-44-4112 
        8.68        47.61        28.37         8.09        12.89         4.60 
TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 TCGA-44-6148 TCGA-44-6778 TCGA-44-6779 
        3.48        16.37         0.30         3.12        36.49        16.41 
TCGA-44-7660 TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 TCGA-49-4487 TCGA-49-4494 
        5.33         1.64        18.31        18.87        28.11        35.54 
TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6761 TCGA-50-5044 TCGA-50-5072 
       32.84         8.81        43.20         0.03        20.48         8.05 
TCGA-50-5931 TCGA-50-5933 TCGA-50-5946 TCGA-50-6590 TCGA-50-6591 TCGA-50-6592 
        8.78        77.88        11.47        42.31         3.88        25.51 
TCGA-50-6594 TCGA-50-6595 TCGA-53-7624 TCGA-55-1594 TCGA-55-5899 TCGA-55-6969 
       12.16         6.21        35.11        38.73         2.86        40.70 
TCGA-55-6971 TCGA-55-6978 TCGA-55-7910 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 
        0.92         5.46         6.48        56.81        20.65        39.09 
TCGA-64-5774 TCGA-64-5779 TCGA-64-5781 TCGA-64-5815 TCGA-67-3771 TCGA-71-6725 
       83.84        16.67        39.52         7.33         1.97         2.01 
TCGA-78-7146 TCGA-78-7150 TCGA-78-7153 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 
        5.65        21.86        24.99        19.50        38.50        40.11 
TCGA-78-7536 TCGA-78-7542 TCGA-86-7701 TCGA-86-7711 TCGA-86-7953 TCGA-91-6831 
        8.02        10.55         0.36         0.89         1.12         1.28 
TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 TCGA-95-7043 TCGA-95-7567 
        0.36        26.93         4.18         0.07         5.36 

subtype1 subtype2 subtype3 
    0.03     0.07     0.03 
subtype1 subtype2 subtype3 
  163.10   223.96    83.84 
subtype1 subtype2 subtype3 
   12.13    13.74    10.55 
[1] "0.0 - 163.1 (12.1)" "0.1 - 224.0 (13.7)" "0.0 - 83.8 (10.6)" 
  [1] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [13] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[187] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[199] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2"
  [1] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [13] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[187] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[199] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2"
  [1] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [13] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [91] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[187] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[199] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 53 33
  subtype2 40 35
  subtype3 38 37
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   53   33
  subtype2   40   35
  subtype3   38   37
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       53       40       38
  MALE         33       35       37
D5V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          2                                19
  subtype2                          3                                21
  subtype3                          1                                12
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 56
  subtype2                                                 36
  subtype3                                                 58
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          3
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             3
  subtype2                                             6
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  1
  subtype2                              0                                  1
  subtype3                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            1                             1
  subtype2                            0                             3
  subtype3                            1                             2
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 1
  subtype2                                 2
  subtype3                                 0
D5V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 24 49  8  4
  subtype2 23 43  2  7
  subtype3 17 49  7  2
D5V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 45 22    15
  subtype2 49 13    12
  subtype3 46 11    17
D5V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 60  5 19
  subtype2 49  4 21
  subtype3 56  3 15
D5V8, multiclass
          vv
clus        I II III IV
  subtype1 43 20  16  5
  subtype2 38 17  14  5
  subtype3 41 12  19  3
D5V9, multiclass
D5V10, binary
          cls
clus        0  1
  subtype1  6 80
  subtype2  4 71
  subtype3  5 70
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   80
  subtype2    4   71
  subtype3    5   70
     clus
vv    subtype1 subtype2 subtype3
  NO         6        4        5
  YES       80       71       70
D5V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          27
  subtype2                                          26
  subtype3                                          31
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     24             11
  subtype2                                     25             16
  subtype3                                     10             25
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  19
  subtype2                   6
  subtype3                   6
D5V12, multiclass
D5V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 43  2  3  5
  subtype2 43  3  0  1
  subtype3 41  1  0  5
D5V14, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 14  4
  subtype2 47 30
  subtype3 43 19
  subtype4 43 13
subtype1 subtype2 subtype3 subtype4 
      18       77       62       56 
subtype1 subtype2 subtype3 subtype4 
       4       30       19       13 
$subtype1
TCGA-05-4405 TCGA-05-5420 TCGA-44-6145 TCGA-44-6776 TCGA-49-4505 TCGA-50-5044 
       20.05         1.02         3.35        63.72        14.07        20.48 
TCGA-50-6673 TCGA-55-6970 TCGA-55-7573 TCGA-64-5778 TCGA-78-7152 TCGA-78-7160 
        0.72        15.25         0.13        30.44        39.48        22.29 
TCGA-91-6830 TCGA-91-6835 TCGA-91-7771 TCGA-97-7937 TCGA-97-7941 TCGA-99-7458 
        0.03         1.15         1.02         5.95         0.72         8.22 

$subtype2
TCGA-05-4249 TCGA-05-4250 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 TCGA-05-4430 
       38.07         3.98        24.03        47.05         8.02        25.02 
TCGA-05-4434 TCGA-05-5423 TCGA-05-5715 TCGA-35-4122 TCGA-35-4123 TCGA-38-4627 
       15.02         4.96         2.04         7.36         5.95        37.71 
TCGA-38-6178 TCGA-44-2656 TCGA-44-2657 TCGA-44-2661 TCGA-44-2664 TCGA-44-2665 
        5.19        19.10        13.15         3.39        12.59        13.15 
TCGA-44-3918 TCGA-44-3919 TCGA-44-5645 TCGA-44-6147 TCGA-44-6775 TCGA-44-6777 
        6.44         6.21         6.84         7.76         2.70        32.45 
TCGA-44-6779 TCGA-49-4488 TCGA-49-4501 TCGA-49-4512 TCGA-49-6745 TCGA-50-5045 
       16.41        28.57        46.72        29.75         4.93        71.47 
TCGA-50-5049 TCGA-50-5066 TCGA-50-5068 TCGA-50-5933 TCGA-50-5936 TCGA-50-5939 
       48.82         9.76        49.28        77.88         8.45        15.12 
TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-50-6590 TCGA-50-6591 TCGA-50-6593 
        9.37         4.44        12.26        42.31         3.88        11.05 
TCGA-50-6597 TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-55-6712 TCGA-55-6969 
       33.37        23.05        38.73        45.17         0.79        40.70 
TCGA-55-6978 TCGA-55-6979 TCGA-55-6981 TCGA-55-6982 TCGA-55-7911 TCGA-64-1676 
        5.46         7.76        45.34        32.71         0.69        56.81 
TCGA-64-1679 TCGA-64-1680 TCGA-64-1681 TCGA-64-5815 TCGA-67-6215 TCGA-67-6216 
       55.40        37.02        44.38         7.33         0.89         0.69 
TCGA-67-6217 TCGA-71-6725 TCGA-73-7499 TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 
       13.87         2.01        17.06       163.10        27.16        19.27 
TCGA-78-7158 TCGA-78-7535 TCGA-78-7539 TCGA-83-5908 TCGA-91-6828 TCGA-91-6829 
        5.88        31.20        10.75        13.81         1.22        41.33 
TCGA-91-6847 TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-95-7948 
       26.93         4.18         1.12         5.36         4.34 

$subtype3
TCGA-05-4418 TCGA-05-4420 TCGA-05-4427 TCGA-35-5375 TCGA-38-4625 TCGA-38-4629 
        8.98        29.95        26.01         8.68        47.61        28.37 
TCGA-44-2668 TCGA-44-3917 TCGA-44-4112 TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 
        8.09        12.89         4.60         3.48        16.37         0.30 
TCGA-44-6148 TCGA-44-6774 TCGA-44-6778 TCGA-44-7660 TCGA-44-7662 TCGA-44-7667 
        3.12         5.42        36.49         5.33         1.64        18.31 
TCGA-44-7669 TCGA-44-7670 TCGA-49-4487 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 
       18.87        17.46        28.11        32.84         8.81        43.20 
TCGA-49-6743 TCGA-49-6761 TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5946 
       12.13         0.03         8.05         9.27         8.78        11.47 
TCGA-50-6592 TCGA-50-6594 TCGA-50-6595 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 
       25.51        12.16         6.21         8.38        35.11        13.74 
TCGA-55-5899 TCGA-55-6971 TCGA-55-7815 TCGA-55-7910 TCGA-64-1677 TCGA-64-1678 
        2.86         0.92         1.78         6.48        20.65        39.09 
TCGA-64-5774 TCGA-64-5779 TCGA-64-5781 TCGA-67-3771 TCGA-69-7760 TCGA-69-7765 
       83.84        16.67        39.52         1.97         5.06         4.24 
TCGA-78-7146 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 TCGA-78-7166 
        5.65        21.86        19.50        38.50        40.11         8.48 
TCGA-78-7536 TCGA-78-7542 TCGA-86-7701 TCGA-86-7711 TCGA-86-7953 TCGA-91-6831 
        8.02        10.55         0.36         0.89         1.12         1.28 
TCGA-91-6836 TCGA-95-7043 
        0.36         0.07 

$subtype4
TCGA-05-4384 TCGA-05-4396 TCGA-05-4417 TCGA-05-4426 TCGA-05-5425 TCGA-05-5429 
       14.01         9.96        14.93        26.01         2.96         0.99 
TCGA-35-3615 TCGA-38-4626 TCGA-44-3396 TCGA-44-3398 TCGA-44-6146 TCGA-44-7659 
        0.46        85.32        10.22         8.32         9.93         9.80 
TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-49-4486 TCGA-49-4494 TCGA-49-4510 
        5.03        17.59        13.74        76.21        35.54        29.46 
TCGA-49-6742 TCGA-49-6744 TCGA-50-5051 TCGA-50-5932 TCGA-53-7626 TCGA-55-6543 
       15.02        12.99        14.96        35.87        31.89         0.07 
TCGA-55-7574 TCGA-55-7728 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-73-4658 
        3.12         0.79         6.12        22.68        13.61        52.57 
TCGA-73-4659 TCGA-73-4670 TCGA-73-4675 TCGA-73-4676 TCGA-73-7498 TCGA-78-7148 
       23.38         0.46         1.32         4.01        20.42        20.58 
TCGA-78-7149 TCGA-78-7153 TCGA-78-7156 TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 
       35.93        24.99        32.09         7.04       104.15       223.96 
TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-86-7713 TCGA-91-6849 
       88.11        53.33        28.96        32.68         0.23         0.92 
TCGA-93-7348 TCGA-95-7944 TCGA-95-7947 TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 
        4.18         0.69         1.32        31.66        48.53        43.76 
TCGA-97-7554 TCGA-97-7938 
        8.65         0.59 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.69     0.03     0.07 
subtype1 subtype2 subtype3 subtype4 
   63.72   163.10    83.84   223.96 
subtype1 subtype2 subtype3 subtype4 
   7.085   13.150    8.895   14.470 
[1] "0.0 - 63.7 (7.1)"   "0.7 - 163.1 (13.2)" "0.0 - 83.8 (8.9)"  
[4] "0.1 - 224.0 (14.5)"
  [1] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype4" "subtype3" "subtype3" "subtype4"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
 [19] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
 [25] "subtype3" "subtype4" "subtype2" "subtype3" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
 [37] "subtype4" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [43] "subtype3" "subtype2" "subtype3" "subtype1" "subtype4" "subtype2"
 [49] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [55] "subtype2" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype4" "subtype4" "subtype4" "subtype3"
 [67] "subtype2" "subtype4" "subtype2" "subtype1" "subtype3" "subtype3"
 [73] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype4"
 [79] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[103] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype4"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
[115] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[145] "subtype4" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[151] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype2"
[157] "subtype2" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
[163] "subtype3" "subtype1" "subtype4" "subtype3" "subtype3" "subtype4"
[169] "subtype2" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[175] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype2"
[181] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype3"
[187] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
[199] "subtype4" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
[205] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[211] "subtype4" "subtype1" "subtype1"
  [1] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype4" "subtype3" "subtype3" "subtype4"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
 [19] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
 [25] "subtype3" "subtype4" "subtype2" "subtype3" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
 [37] "subtype4" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [43] "subtype3" "subtype2" "subtype3" "subtype1" "subtype4" "subtype2"
 [49] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [55] "subtype2" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype4" "subtype4" "subtype4" "subtype3"
 [67] "subtype2" "subtype4" "subtype2" "subtype1" "subtype3" "subtype3"
 [73] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype4"
 [79] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[103] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype4"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
[115] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[145] "subtype4" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[151] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype2"
[157] "subtype2" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
[163] "subtype3" "subtype1" "subtype4" "subtype3" "subtype3" "subtype4"
[169] "subtype2" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[175] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype2"
[181] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype3"
[187] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
[199] "subtype4" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
[205] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[211] "subtype4" "subtype1" "subtype1"
  [1] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype4" "subtype3" "subtype3" "subtype4"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
 [19] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
 [25] "subtype3" "subtype4" "subtype2" "subtype3" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
 [37] "subtype4" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [43] "subtype3" "subtype2" "subtype3" "subtype1" "subtype4" "subtype2"
 [49] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [55] "subtype2" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype4" "subtype4" "subtype4" "subtype3"
 [67] "subtype2" "subtype4" "subtype2" "subtype1" "subtype3" "subtype3"
 [73] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype4"
 [79] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype4"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[103] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype4"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
[115] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[145] "subtype4" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[151] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype2"
[157] "subtype2" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
[163] "subtype3" "subtype1" "subtype4" "subtype3" "subtype3" "subtype4"
[169] "subtype2" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[175] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype2"
[181] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype3"
[187] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype4" "subtype1"
[199] "subtype4" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
[205] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[211] "subtype4" "subtype1" "subtype1"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 15  8
  subtype2 56 34
  subtype3 33 32
  subtype4 27 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15    8
  subtype2   56   34
  subtype3   33   32
  subtype4   27   31
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       15       56       33       27
  MALE          8       34       32       31
D6V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          1                                 4
  subtype2                          1                                20
  subtype3                          2                                10
  subtype4                          2                                18
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 12
  subtype2                                                 63
  subtype3                                                 48
  subtype4                                                 27
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          0
  subtype3                                          0
  subtype4                                          3
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             3
  subtype2                                             2
  subtype3                                             2
  subtype4                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  2
  subtype2                              0                                  0
  subtype3                              1                                  0
  subtype4                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             1
  subtype2                            0                             2
  subtype3                            1                             1
  subtype4                            1                             2
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             1
  subtype3                                             0
  subtype4                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 0
  subtype2                                 1
  subtype3                                 0
  subtype4                                 2
D6V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1  7 11  2  3
  subtype2 23 58  3  5
  subtype3 17 39  7  2
  subtype4 17 33  5  3
D6V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 15  4     4
  subtype2 48 21    16
  subtype3 39  9    16
  subtype4 38 12     8
D6V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 14  1  8
  subtype2 62  6 20
  subtype3 47  2 15
  subtype4 42  3 12
D6V8, multiclass
          vv
clus        I II III IV
  subtype1 12  5   5  1
  subtype2 48 19  15  6
  subtype3 32 12  18  3
  subtype4 30 13  11  3
D6V9, multiclass
D6V10, binary
          cls
clus        0  1
  subtype1  0 23
  subtype2  6 84
  subtype3  6 59
  subtype4  3 55
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   23
  subtype2    6   84
  subtype3    6   59
  subtype4    3   55
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        6        6        3
  YES       23       84       59       55
D6V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          13
  subtype2                                          27
  subtype3                                          26
  subtype4                                          18
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                      5              0
  subtype2                                     23             15
  subtype3                                      8             25
  subtype4                                     23             12
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   4
  subtype2                  19
  subtype3                   4
  subtype4                   4
D6V12, multiclass
D6V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 12  0  0  0
  subtype2 46  3  3  4
  subtype3 34  1  0  4
  subtype4 35  2  0  3
D6V14, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 63 23
  subtype2 49 13
  subtype3 26 20
  subtype4 48 17
  subtype5 29  7
subtype1 subtype2 subtype3 subtype4 subtype5 
      86       62       46       65       36 
subtype1 subtype2 subtype3 subtype4 subtype5 
      23       13       20       17        7 
$subtype1
TCGA-05-4382 TCGA-05-4398 TCGA-05-4405 TCGA-05-4426 TCGA-05-4427 TCGA-35-4122 
       19.92        47.05        20.05        26.01        26.01         7.36 
TCGA-35-4123 TCGA-38-4628 TCGA-38-4629 TCGA-38-4632 TCGA-38-6178 TCGA-44-2656 
        5.95        49.02        28.37        44.61         5.19        19.10 
TCGA-44-2662 TCGA-44-2665 TCGA-44-2668 TCGA-44-3396 TCGA-44-3398 TCGA-44-3918 
       15.78        13.15         8.09        10.22         8.32         6.44 
TCGA-44-3919 TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 TCGA-44-7661 TCGA-44-7662 
        6.21         4.60         2.70        32.45         5.03         1.64 
TCGA-44-8117 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4505 TCGA-49-4512 
        8.52        28.57        12.66        35.54        14.07        29.75 
TCGA-49-6745 TCGA-49-6761 TCGA-50-5049 TCGA-50-5066 TCGA-50-5933 TCGA-50-5941 
        4.93         0.03        48.82         9.76        77.88         9.37 
TCGA-50-6590 TCGA-50-6594 TCGA-50-6595 TCGA-55-1595 TCGA-55-6712 TCGA-55-6978 
       42.31        12.16         6.21        48.62         0.79         5.46 
TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-7281 TCGA-55-7576 
        7.76         2.20        45.34        32.71         0.59         1.32 
TCGA-55-7726 TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 TCGA-55-8301 TCGA-64-1676 
        1.02         0.62         0.53         0.69         1.41        56.81 
TCGA-64-1679 TCGA-64-5775 TCGA-64-5778 TCGA-64-5815 TCGA-69-7760 TCGA-69-7765 
       55.40         0.10        30.44         7.33         5.06         4.24 
TCGA-69-7978 TCGA-69-7980 TCGA-71-6725 TCGA-73-4658 TCGA-73-4666 TCGA-73-4668 
        2.30        12.56         2.01        52.57        20.28        15.35 
TCGA-73-4676 TCGA-78-7143 TCGA-78-7145 TCGA-78-7146 TCGA-78-7535 TCGA-83-5908 
        4.01       163.10        27.16         5.65        31.20        13.81 
TCGA-86-7711 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 TCGA-91-6836 
        0.89         0.33         0.79         1.41         0.69         0.36 
TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-95-7948 TCGA-97-7554 TCGA-97-7937 
        4.18         1.12         5.36         4.34         8.65         5.95 
TCGA-99-8028 TCGA-J2-8192 
       15.06         5.03 

$subtype2
TCGA-05-4249 TCGA-05-4384 TCGA-05-5423 TCGA-05-5715 TCGA-35-3615 TCGA-38-4626 
       38.07        14.01         4.96         2.04         0.46        85.32 
TCGA-38-7271 TCGA-44-2655 TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 TCGA-44-6776 
       26.30        18.87        17.39         3.39         3.19        63.72 
TCGA-49-4486 TCGA-49-4501 TCGA-49-6744 TCGA-50-5932 TCGA-50-5935 TCGA-50-5942 
       76.21        46.72        12.99        35.87        21.47         4.44 
TCGA-50-5944 TCGA-50-6597 TCGA-53-7626 TCGA-55-6543 TCGA-55-6986 TCGA-55-7227 
       12.26        33.37        31.89         0.07        71.05         2.01 
TCGA-55-7283 TCGA-55-7574 TCGA-55-7725 TCGA-55-7727 TCGA-55-7914 TCGA-55-8087 
        1.12         3.12         1.28         1.02         0.10         0.69 
TCGA-55-8090 TCGA-55-8097 TCGA-67-3770 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 
        0.20         0.49         0.99         2.04         0.59         0.89 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7763 TCGA-69-7764 TCGA-69-8253 TCGA-73-4662 
        0.69        13.87        22.68        13.61         3.25        29.95 
TCGA-73-4677 TCGA-73-7498 TCGA-78-7152 TCGA-78-7156 TCGA-78-7158 TCGA-78-7162 
        1.25        20.42        39.48        32.09         5.88       104.15 
TCGA-78-7537 TCGA-78-7539 TCGA-78-7633 TCGA-91-6849 TCGA-93-7347 TCGA-97-7546 
       53.33        10.75        32.68         0.92         9.76        31.66 
TCGA-97-7547 TCGA-97-7553 TCGA-97-7938 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 
       47.18        43.76         0.59         5.95         5.36         4.80 
TCGA-97-8179 TCGA-99-7458 
        0.49         8.22 

$subtype3
TCGA-05-4250 TCGA-05-4415 TCGA-05-4418 TCGA-05-4433 TCGA-05-5420 TCGA-05-5425 
        3.98         2.96         8.98        24.00         1.02         2.96 
TCGA-05-5429 TCGA-38-4625 TCGA-44-5643 TCGA-44-6145 TCGA-44-6146 TCGA-44-6779 
        0.99        47.61         3.48         3.35         9.93        16.41 
TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-50-5044 
       32.84         8.81        43.20        15.02        12.13        20.48 
TCGA-50-5072 TCGA-50-5936 TCGA-50-5939 TCGA-50-6592 TCGA-50-6673 TCGA-55-6970 
        8.05         8.45        15.12        25.51         0.72        15.25 
TCGA-55-6975 TCGA-55-6984 TCGA-55-6987 TCGA-55-7728 TCGA-55-8089 TCGA-55-8092 
        3.88        24.99        38.47         0.79         3.02         0.85 
TCGA-55-8299 TCGA-64-5781 TCGA-69-7761 TCGA-73-4670 TCGA-78-7148 TCGA-78-7150 
        7.07        39.52         6.12         0.46        20.58        21.86 
TCGA-78-7154 TCGA-78-7160 TCGA-78-7166 TCGA-78-7220 TCGA-78-7540 TCGA-78-7542 
       19.50        22.29         8.48        26.53        28.96        10.55 
TCGA-91-6830 TCGA-93-8067 TCGA-95-7944 TCGA-99-8033 
        0.03         6.08         0.69         5.56 

$subtype4
TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4417 TCGA-05-4420 TCGA-05-4424 
       37.02         9.96        24.03        14.93        29.95        30.02 
TCGA-05-4432 TCGA-35-5375 TCGA-38-4630 TCGA-38-4631 TCGA-44-5644 TCGA-44-6774 
       25.02         8.68        35.28        11.64        16.37         5.42 
TCGA-44-6778 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 TCGA-44-8119 TCGA-49-4487 
       36.49         5.33        18.31        18.87         3.22        28.11 
TCGA-49-4510 TCGA-50-5051 TCGA-50-5931 TCGA-50-5946 TCGA-50-6591 TCGA-50-7109 
       29.46        14.96         8.78        11.47         3.88         8.38 
TCGA-53-7624 TCGA-53-7813 TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-55-5899 
       35.11        13.74        23.05        38.73        45.17         2.86 
TCGA-55-6642 TCGA-55-6968 TCGA-55-6969 TCGA-55-6971 TCGA-55-6972 TCGA-55-7815 
       32.61        42.48        40.70         0.92        48.49         1.78 
TCGA-55-7910 TCGA-55-8094 TCGA-64-1677 TCGA-64-1678 TCGA-64-5774 TCGA-64-5779 
        6.48         0.13        20.65        39.09        83.84        16.67 
TCGA-67-3771 TCGA-69-7973 TCGA-69-8255 TCGA-73-4659 TCGA-78-7149 TCGA-78-7153 
        1.97         7.56         4.21        23.38        35.93        24.99 
TCGA-78-7155 TCGA-78-7159 TCGA-78-7161 TCGA-78-7167 TCGA-78-7536 TCGA-86-7701 
       38.50        40.11         7.04        88.11         8.02         0.36 
TCGA-86-7713 TCGA-86-7953 TCGA-86-8054 TCGA-91-6828 TCGA-91-6829 TCGA-91-6831 
        0.23         1.12         0.62         1.22        41.33         1.28 
TCGA-91-6847 TCGA-91-7771 TCGA-95-7043 TCGA-99-8032 TCGA-J2-8194 
       26.93         1.02         0.07         1.45         3.72 

$subtype5
TCGA-05-4402 TCGA-05-4430 TCGA-05-4434 TCGA-38-4627 TCGA-44-2657 TCGA-44-5645 
        8.02        25.02        15.02        37.71        13.15         6.84 
TCGA-44-6147 TCGA-44-6148 TCGA-44-7659 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 
        7.76         3.12         9.80        17.46        17.59        13.74 
TCGA-50-5055 TCGA-50-5068 TCGA-50-6593 TCGA-55-6983 TCGA-55-6985 TCGA-55-7573 
       25.81        49.28        11.05        60.03        40.54         0.13 
TCGA-64-1680 TCGA-64-1681 TCGA-67-3772 TCGA-69-7974 TCGA-69-7979 TCGA-69-8254 
       37.02        44.38         0.59         6.05         2.93         2.50 
TCGA-73-4675 TCGA-73-7499 TCGA-78-7147 TCGA-78-7163 TCGA-86-8076 TCGA-86-8280 
        1.32        17.06        19.27       223.96         0.85         0.53 
TCGA-91-6835 TCGA-93-7348 TCGA-95-7947 TCGA-97-7552 TCGA-97-7941 TCGA-99-8025 
        1.15         4.18         1.32        48.53         0.72        14.04 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.03     0.07     0.03     0.07     0.13 
subtype1 subtype2 subtype3 subtype4 subtype5 
  163.10   104.15    47.61    88.11   223.96 
subtype1 subtype2 subtype3 subtype4 subtype5 
   7.925    8.990    8.895   14.960   12.100 
[1] "0.0 - 163.1 (7.9)"  "0.1 - 104.2 (9.0)"  "0.0 - 47.6 (8.9)"  
[4] "0.1 - 88.1 (15.0)"  "0.1 - 224.0 (12.1)"
  [1] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
  [7] "subtype4" "subtype1" "subtype5" "subtype1" "subtype3" "subtype4"
 [13] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype5"
 [19] "subtype4" "subtype3" "subtype5" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype4"
 [31] "subtype3" "subtype2" "subtype5" "subtype1" "subtype1" "subtype4"
 [37] "subtype4" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [43] "subtype5" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype3" "subtype4" "subtype5" "subtype3" "subtype3" "subtype5"
 [61] "subtype5" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [67] "subtype3" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
 [73] "subtype4" "subtype5" "subtype5" "subtype5" "subtype1" "subtype4"
 [79] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype4" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype1" "subtype4" "subtype5" "subtype1" "subtype5" "subtype3"
[103] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[115] "subtype3" "subtype5" "subtype1" "subtype1" "subtype2" "subtype3"
[121] "subtype4" "subtype4" "subtype2" "subtype4" "subtype4" "subtype4"
[127] "subtype1" "subtype4" "subtype4" "subtype2" "subtype4" "subtype1"
[133] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype5"
[145] "subtype3" "subtype5" "subtype2" "subtype3" "subtype2" "subtype1"
[151] "subtype2" "subtype5" "subtype2" "subtype1" "subtype2" "subtype1"
[157] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype4"
[163] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype4" "subtype2" "subtype3" "subtype1" "subtype1" "subtype4"
[175] "subtype4" "subtype1" "subtype5" "subtype5" "subtype4" "subtype1"
[181] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype4"
[187] "subtype5" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype4"
[199] "subtype5" "subtype1" "subtype5" "subtype1" "subtype2" "subtype5"
[205] "subtype4" "subtype1" "subtype1" "subtype4" "subtype2" "subtype1"
[211] "subtype1" "subtype3" "subtype5" "subtype1" "subtype2" "subtype2"
[217] "subtype5" "subtype1" "subtype1" "subtype1" "subtype5" "subtype3"
[223] "subtype4" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
[229] "subtype2" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[235] "subtype5" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
[241] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[247] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype1"
[253] "subtype1" "subtype1" "subtype5" "subtype1" "subtype5" "subtype4"
[259] "subtype4" "subtype3" "subtype4" "subtype5" "subtype1" "subtype4"
[265] "subtype1" "subtype2" "subtype4" "subtype2" "subtype5" "subtype3"
[271] "subtype1" "subtype4" "subtype1" "subtype3" "subtype5" "subtype1"
[277] "subtype2" "subtype2" "subtype5" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype5" "subtype1" "subtype4" "subtype3" "subtype1"
[295] "subtype4"
  [1] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
  [7] "subtype4" "subtype1" "subtype5" "subtype1" "subtype3" "subtype4"
 [13] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype5"
 [19] "subtype4" "subtype3" "subtype5" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype4"
 [31] "subtype3" "subtype2" "subtype5" "subtype1" "subtype1" "subtype4"
 [37] "subtype4" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [43] "subtype5" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype3" "subtype4" "subtype5" "subtype3" "subtype3" "subtype5"
 [61] "subtype5" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [67] "subtype3" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
 [73] "subtype4" "subtype5" "subtype5" "subtype5" "subtype1" "subtype4"
 [79] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype4" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype1" "subtype4" "subtype5" "subtype1" "subtype5" "subtype3"
[103] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[115] "subtype3" "subtype5" "subtype1" "subtype1" "subtype2" "subtype3"
[121] "subtype4" "subtype4" "subtype2" "subtype4" "subtype4" "subtype4"
[127] "subtype1" "subtype4" "subtype4" "subtype2" "subtype4" "subtype1"
[133] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype5"
[145] "subtype3" "subtype5" "subtype2" "subtype3" "subtype2" "subtype1"
[151] "subtype2" "subtype5" "subtype2" "subtype1" "subtype2" "subtype1"
[157] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype4"
[163] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype4" "subtype2" "subtype3" "subtype1" "subtype1" "subtype4"
[175] "subtype4" "subtype1" "subtype5" "subtype5" "subtype4" "subtype1"
[181] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype4"
[187] "subtype5" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype4"
[199] "subtype5" "subtype1" "subtype5" "subtype1" "subtype2" "subtype5"
[205] "subtype4" "subtype1" "subtype1" "subtype4" "subtype2" "subtype1"
[211] "subtype1" "subtype3" "subtype5" "subtype1" "subtype2" "subtype2"
[217] "subtype5" "subtype1" "subtype1" "subtype1" "subtype5" "subtype3"
[223] "subtype4" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
[229] "subtype2" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[235] "subtype5" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
[241] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[247] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype1"
[253] "subtype1" "subtype1" "subtype5" "subtype1" "subtype5" "subtype4"
[259] "subtype4" "subtype3" "subtype4" "subtype5" "subtype1" "subtype4"
[265] "subtype1" "subtype2" "subtype4" "subtype2" "subtype5" "subtype3"
[271] "subtype1" "subtype4" "subtype1" "subtype3" "subtype5" "subtype1"
[277] "subtype2" "subtype2" "subtype5" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype5" "subtype1" "subtype4" "subtype3" "subtype1"
[295] "subtype4"
  [1] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
  [7] "subtype4" "subtype1" "subtype5" "subtype1" "subtype3" "subtype4"
 [13] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype5"
 [19] "subtype4" "subtype3" "subtype5" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype4"
 [31] "subtype3" "subtype2" "subtype5" "subtype1" "subtype1" "subtype4"
 [37] "subtype4" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [43] "subtype5" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype3" "subtype4" "subtype5" "subtype3" "subtype3" "subtype5"
 [61] "subtype5" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [67] "subtype3" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
 [73] "subtype4" "subtype5" "subtype5" "subtype5" "subtype1" "subtype4"
 [79] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype4" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype1" "subtype4" "subtype5" "subtype1" "subtype5" "subtype3"
[103] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[115] "subtype3" "subtype5" "subtype1" "subtype1" "subtype2" "subtype3"
[121] "subtype4" "subtype4" "subtype2" "subtype4" "subtype4" "subtype4"
[127] "subtype1" "subtype4" "subtype4" "subtype2" "subtype4" "subtype1"
[133] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype5"
[145] "subtype3" "subtype5" "subtype2" "subtype3" "subtype2" "subtype1"
[151] "subtype2" "subtype5" "subtype2" "subtype1" "subtype2" "subtype1"
[157] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype4"
[163] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype4" "subtype2" "subtype3" "subtype1" "subtype1" "subtype4"
[175] "subtype4" "subtype1" "subtype5" "subtype5" "subtype4" "subtype1"
[181] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype4"
[187] "subtype5" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype4"
[199] "subtype5" "subtype1" "subtype5" "subtype1" "subtype2" "subtype5"
[205] "subtype4" "subtype1" "subtype1" "subtype4" "subtype2" "subtype1"
[211] "subtype1" "subtype3" "subtype5" "subtype1" "subtype2" "subtype2"
[217] "subtype5" "subtype1" "subtype1" "subtype1" "subtype5" "subtype3"
[223] "subtype4" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
[229] "subtype2" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[235] "subtype5" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
[241] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[247] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype1"
[253] "subtype1" "subtype1" "subtype5" "subtype1" "subtype5" "subtype4"
[259] "subtype4" "subtype3" "subtype4" "subtype5" "subtype1" "subtype4"
[265] "subtype1" "subtype2" "subtype4" "subtype2" "subtype5" "subtype3"
[271] "subtype1" "subtype4" "subtype1" "subtype3" "subtype5" "subtype1"
[277] "subtype2" "subtype2" "subtype5" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype5" "subtype1" "subtype4" "subtype3" "subtype1"
[295] "subtype4"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 52 43
  subtype2 46 24
  subtype3 23 28
  subtype4 33 42
  subtype5 26 14
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   52   43
  subtype2   46   24
  subtype3   23   28
  subtype4   33   42
  subtype5   26   14
D7V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          1                                15
  subtype2                          4                                18
  subtype3                          1                                12
  subtype4                          2                                17
  subtype5                          2                                12
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 69
  subtype2                                                 38
  subtype3                                                 30
  subtype4                                                 47
  subtype5                                                 20
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          1
  subtype3                                          1
  subtype4                                          0
  subtype5                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             3
  subtype2                                             6
  subtype3                                             0
  subtype4                                             4
  subtype5                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  2
  subtype2                              0                                  1
  subtype3                              1                                  0
  subtype4                              0                                  0
  subtype5                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             4
  subtype2                            0                             2
  subtype3                            1                             2
  subtype4                            0                             3
  subtype5                            1                             2
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             0
  subtype4                                             2
  subtype5                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 0
  subtype2                                 0
  subtype3                                 3
  subtype4                                 0
  subtype5                                 1
D7V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 24 59  7  5
  subtype2 30 34  3  3
  subtype3  9 30  7  4
  subtype4 19 46  6  4
  subtype5 15 19  4  1
D7V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 51 24    19
  subtype2 51 11     7
  subtype3 22 14    14
  subtype4 58  8     8
  subtype5 22  8     5
D7V7, multiclass
          vv
clus       M0 M1 M1B MX
  subtype1 66  4   0 23
  subtype2 49  2   0 17
  subtype3 38  3   0 10
  subtype4 49  5   1 18
  subtype5 24  3   0 11
D7V8, multiclass
          vv
clus        I II III IV
  subtype1 43 25  20  5
  subtype2 44 13   8  2
  subtype3 19 13  16  3
  subtype4 45 13  12  5
  subtype5 23  8   5  3
D7V9, multiclass
D7V10, binary
          cls
clus        0  1
  subtype1  6 89
  subtype2  4 66
  subtype3  4 47
  subtype4  2 73
  subtype5  2 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   89
  subtype2    4   66
  subtype3    4   47
  subtype4    2   73
  subtype5    2   38
D7V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          35
  subtype2                                          17
  subtype3                                          21
  subtype4                                          28
  subtype5                                          13
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     22             20
  subtype2                                     30              8
  subtype3                                     11             11
  subtype4                                     11             28
  subtype5                                     13              6
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  16
  subtype2                  12
  subtype3                   5
  subtype4                   7
  subtype5                   6
D7V12, multiclass
D7V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 55  2  0  3
  subtype2 40  3  0  2
  subtype3 29  1  1  2
  subtype4 43  3  0  1
  subtype5 16  0  3  3
D7V14, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 98 29
  subtype2 61 28
  subtype3 56 23
subtype1 subtype2 subtype3 
     127       89       79 
subtype1 subtype2 subtype3 
      29       28       23 
$subtype1
TCGA-05-4249 TCGA-05-4384 TCGA-05-4396 TCGA-05-4426 TCGA-05-4430 TCGA-05-4433 
       38.07        14.01         9.96        26.01        25.02        24.00 
TCGA-05-4434 TCGA-05-5423 TCGA-05-5429 TCGA-05-5715 TCGA-35-3615 TCGA-38-4626 
       15.02         4.96         0.99         2.04         0.46        85.32 
TCGA-38-4627 TCGA-38-4632 TCGA-38-7271 TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 
       37.71        44.61        26.30        18.87        13.15        17.39 
TCGA-44-2661 TCGA-44-2665 TCGA-44-2666 TCGA-44-3919 TCGA-44-5645 TCGA-44-6146 
        3.39        13.15         3.19         6.21         6.84         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-7659 TCGA-44-7670 TCGA-44-7671 
        7.76         3.12        63.72         9.80        17.46        17.59 
TCGA-44-7672 TCGA-49-4486 TCGA-49-4487 TCGA-49-4488 TCGA-49-4501 TCGA-49-4510 
       13.74        76.21        28.11        28.57        46.72        29.46 
TCGA-49-4512 TCGA-49-6744 TCGA-50-5049 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 
       29.75        12.99        48.82        25.81        49.28        35.87 
TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6673 TCGA-53-7626 TCGA-55-6543 
        4.44        12.26        11.05         0.72        31.89         0.07 
TCGA-55-6971 TCGA-55-6972 TCGA-55-6982 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 
        0.92        48.49        32.71        60.03        24.99        40.54 
TCGA-55-6986 TCGA-55-6987 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 
       71.05        38.47         2.01         0.59         1.12         0.13 
TCGA-55-7574 TCGA-55-7725 TCGA-55-7728 TCGA-55-7907 TCGA-55-7914 TCGA-55-8087 
        3.12         1.28         0.79         0.53         0.10         0.69 
TCGA-55-8090 TCGA-55-8097 TCGA-55-8299 TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 
        0.20         0.49         7.07        37.02        44.38        30.44 
TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 
        0.99         0.59         2.04         0.59         0.89         0.69 
TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7974 TCGA-69-7979 
       13.87         6.12        22.68        13.61         6.05         2.93 
TCGA-69-8253 TCGA-69-8254 TCGA-73-4662 TCGA-73-4675 TCGA-73-4677 TCGA-73-7498 
        3.25         2.50        29.95         1.32         1.25        20.42 
TCGA-78-7143 TCGA-78-7147 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 TCGA-78-7156 
      163.10        19.27        35.93        39.48        24.99        32.09 
TCGA-78-7158 TCGA-78-7162 TCGA-78-7163 TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 
        5.88       104.15       223.96        88.11        53.33        28.96 
TCGA-78-7633 TCGA-86-8076 TCGA-86-8280 TCGA-91-6830 TCGA-91-6835 TCGA-91-6849 
       32.68         0.85         0.53         0.03         1.15         0.92 
TCGA-91-7771 TCGA-93-7347 TCGA-93-7348 TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 
        1.02         9.76         4.18         1.32         4.34        31.66 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 TCGA-97-8172 
       47.18        48.53        43.76         0.59         0.72         5.95 
TCGA-97-8174 TCGA-97-8177 TCGA-97-8179 TCGA-99-7458 TCGA-99-8025 TCGA-99-8028 
        5.36         4.80         0.49         8.22        14.04        15.06 
TCGA-J2-8194 
        3.72 

$subtype2
TCGA-05-4382 TCGA-05-4390 TCGA-05-4397 TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 
       19.92        37.02        24.03         2.96        14.93         8.98 
TCGA-05-4420 TCGA-05-4424 TCGA-05-4432 TCGA-05-5420 TCGA-05-5425 TCGA-35-5375 
       29.95        30.02        25.02         1.02         2.96         8.68 
TCGA-38-4630 TCGA-38-4631 TCGA-44-5643 TCGA-44-5644 TCGA-44-6145 TCGA-44-6774 
       35.28        11.64         3.48        16.37         3.35         5.42 
TCGA-44-6778 TCGA-44-6779 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 TCGA-44-8119 
       36.49        16.41         5.33        18.31        18.87         3.22 
TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-50-5051 
       32.84         8.81        43.20        15.02        12.13        14.96 
TCGA-50-5072 TCGA-50-5931 TCGA-50-5936 TCGA-50-5939 TCGA-50-5946 TCGA-50-6591 
        8.05         8.78         8.45        15.12        11.47         3.88 
TCGA-50-6592 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-55-1592 TCGA-55-1594 
       25.51         8.38        35.11        13.74        23.05        38.73 
TCGA-55-1596 TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 
       45.17         2.86        32.61        42.48        40.70        15.25 
TCGA-55-6975 TCGA-55-7726 TCGA-55-7815 TCGA-55-7910 TCGA-55-8089 TCGA-55-8092 
        3.88         1.02         1.78         6.48         3.02         0.85 
TCGA-55-8094 TCGA-64-1678 TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 TCGA-64-5781 
        0.13        39.09        83.84         0.10        16.67        39.52 
TCGA-67-3771 TCGA-69-7973 TCGA-69-8255 TCGA-73-4659 TCGA-73-4670 TCGA-78-7148 
        1.97         7.56         4.21        23.38         0.46        20.58 
TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 TCGA-78-7160 TCGA-78-7161 
       21.86        19.50        38.50        40.11        22.29         7.04 
TCGA-78-7166 TCGA-78-7220 TCGA-78-7536 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 
        8.48        26.53         8.02         0.36         0.89         0.23 
TCGA-86-8054 TCGA-91-6828 TCGA-91-6829 TCGA-91-6831 TCGA-91-6847 TCGA-91-6848 
        0.62         1.22        41.33         1.28        26.93         4.18 
TCGA-93-8067 TCGA-95-7043 TCGA-95-7944 TCGA-99-8032 TCGA-99-8033 
        6.08         0.07         0.69         1.45         5.56 

$subtype3
TCGA-05-4250 TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4427 TCGA-35-4122 
        3.98        47.05         8.02        20.05        26.01         7.36 
TCGA-35-4123 TCGA-38-4625 TCGA-38-4628 TCGA-38-4629 TCGA-38-6178 TCGA-44-2656 
        5.95        47.61        49.02        28.37         5.19        19.10 
TCGA-44-2662 TCGA-44-2668 TCGA-44-3396 TCGA-44-3398 TCGA-44-3918 TCGA-44-4112 
       15.78         8.09        10.22         8.32         6.44         4.60 
TCGA-44-6775 TCGA-44-6777 TCGA-44-7661 TCGA-44-7662 TCGA-44-8117 TCGA-49-4490 
        2.70        32.45         5.03         1.64         8.52        12.66 
TCGA-49-4494 TCGA-49-4505 TCGA-49-6745 TCGA-49-6761 TCGA-50-5044 TCGA-50-5066 
       35.54        14.07         4.93         0.03        20.48         9.76 
TCGA-50-5933 TCGA-50-5935 TCGA-50-5941 TCGA-50-6590 TCGA-50-6594 TCGA-50-6595 
       77.88        21.47         9.37        42.31        12.16         6.21 
TCGA-50-6597 TCGA-55-1595 TCGA-55-6712 TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 
       33.37        48.62         0.79         5.46         7.76         2.20 
TCGA-55-6981 TCGA-55-7576 TCGA-55-7727 TCGA-55-7903 TCGA-55-7911 TCGA-55-8301 
       45.34         1.32         1.02         0.62         0.69         1.41 
TCGA-64-1676 TCGA-64-1677 TCGA-64-1679 TCGA-64-5815 TCGA-69-7760 TCGA-69-7765 
       56.81        20.65        55.40         7.33         5.06         4.24 
TCGA-69-7978 TCGA-69-7980 TCGA-71-6725 TCGA-73-4658 TCGA-73-4666 TCGA-73-4668 
        2.30        12.56         2.01        52.57        20.28        15.35 
TCGA-73-4676 TCGA-73-7499 TCGA-78-7145 TCGA-78-7146 TCGA-78-7535 TCGA-78-7539 
        4.01        17.06        27.16         5.65        31.20        10.75 
TCGA-78-7542 TCGA-83-5908 TCGA-86-7953 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 
       10.55        13.81         1.12         0.33         0.79         1.41 
TCGA-86-8279 TCGA-91-6836 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 
        0.69         0.36         1.12         5.36         8.65         5.95 
TCGA-J2-8192 
        5.03 

subtype1 subtype2 subtype3 
    0.03     0.07     0.03 
subtype1 subtype2 subtype3 
  223.96    83.84    77.88 
subtype1 subtype2 subtype3 
   12.26    11.47     8.09 
[1] "0.0 - 224.0 (12.3)" "0.1 - 83.8 (11.5)"  "0.0 - 77.9 (8.1)"  
  [1] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [19] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [49] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[109] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[121] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[163] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[199] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[205] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[217] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[223] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[235] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[241] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[247] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[253] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[265] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[271] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[295] "subtype1"
  [1] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [19] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [49] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[109] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[121] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[163] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[199] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[205] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[217] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[223] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[235] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[241] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[247] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[253] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[265] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[271] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[295] "subtype1"
  [1] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [19] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [49] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [79] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[109] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[121] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[163] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[199] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[205] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[217] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[223] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[235] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[241] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[247] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[253] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[265] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[271] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[295] "subtype1"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 88 55
  subtype2 38 61
  subtype3 54 35
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   88   55
  subtype2   38   61
  subtype3   54   35
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       88       38       54
  MALE         55       61       35
D8V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          7                                36
  subtype2                          2                                23
  subtype3                          1                                15
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 77
  subtype2                                                 64
  subtype3                                                 63
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          3
  subtype2                                          0
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             9
  subtype2                                             2
  subtype3                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              1                                  0
  subtype3                              1                                  2
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             6
  subtype2                            0                             3
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             2
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 2
  subtype2                                 2
  subtype3                                 0
D8V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 52 73 11  6
  subtype2 23 61  8  6
  subtype3 22 54  8  5
D8V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 96 28    14
  subtype2 60 16    21
  subtype3 48 21    18
D8V7, multiclass
          vv
clus       M0 M1 M1B MX
  subtype1 95  7   0 36
  subtype2 66  7   1 23
  subtype3 65  3   0 20
D8V8, multiclass
          vv
clus        I II III IV
  subtype1 85 30  16  7
  subtype2 48 20  24  7
  subtype3 41 22  21  4
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   6 137
  subtype2   6  93
  subtype3   6  83
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  137
  subtype2    6   93
  subtype3    6   83
     clus
vv    subtype1 subtype2 subtype3
  NO         6        6        6
  YES      137       93       83
D8V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          45
  subtype2                                          41
  subtype3                                          28
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     52             17
  subtype2                                     15             34
  subtype3                                     20             22
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  23
  subtype2                   7
  subtype3                  16
D8V12, multiclass
D8V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 77  3  2  6
  subtype2 57  4  0  2
  subtype3 49  2  2  3
D8V14, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2       0  1
  subtype1 98 29
  subtype2 98 37
  subtype3 33 14
subtype1 subtype2 subtype3 
     127      135       47 
subtype1 subtype2 subtype3 
      29       37       14 
$subtype1
TCGA-05-4384 TCGA-05-4426 TCGA-05-4427 TCGA-05-4433 TCGA-05-5429 TCGA-35-3615 
       14.01        26.01        26.01        24.00         0.99         0.46 
TCGA-38-4626 TCGA-38-7271 TCGA-44-2655 TCGA-44-2657 TCGA-44-2661 TCGA-44-2666 
       85.32        26.30        18.87        13.15         3.39         3.19 
TCGA-44-3398 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 TCGA-44-6145 TCGA-44-6146 
        8.32         6.21         4.60         6.84         3.35         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-6777 TCGA-44-7659 TCGA-44-7661 
        7.76         3.12        63.72        32.45         9.80         5.03 
TCGA-44-7671 TCGA-44-7672 TCGA-49-4486 TCGA-49-4487 TCGA-49-4490 TCGA-49-4505 
       17.59        13.74        76.21        28.11        12.66        14.07 
TCGA-49-4510 TCGA-49-6744 TCGA-49-6745 TCGA-50-5045 TCGA-50-5051 TCGA-50-5055 
       29.46        12.99         4.93        71.47        14.96        25.81 
TCGA-50-5068 TCGA-50-5932 TCGA-50-5936 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 
       49.28        35.87         8.45         9.37         4.44        12.26 
TCGA-50-6593 TCGA-50-6597 TCGA-50-6673 TCGA-50-7109 TCGA-53-7626 TCGA-55-6712 
       11.05        33.37         0.72         8.38        31.89         0.79 
TCGA-55-6970 TCGA-55-6972 TCGA-55-6984 TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 
       15.25        48.49        24.99        71.05         2.01         0.59 
TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7576 TCGA-55-7725 TCGA-55-7727 
        1.12         0.13         3.12         1.32         1.28         1.02 
TCGA-55-7728 TCGA-55-7903 TCGA-55-7911 TCGA-55-7914 TCGA-55-8090 TCGA-55-8097 
        0.79         0.62         0.69         0.10         0.20         0.49 
TCGA-55-8510 TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 TCGA-55-8621 TCGA-62-8399 
        7.46         0.10         4.80         1.61         3.45        68.81 
TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 TCGA-64-5815 TCGA-67-3770 TCGA-67-3774 
       37.02        44.38        30.44         7.33         0.99         0.59 
TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 
        0.89         0.69        13.87         6.12        22.68        13.61 
TCGA-69-7765 TCGA-69-8253 TCGA-69-8254 TCGA-73-4662 TCGA-73-4676 TCGA-73-7498 
        4.24         3.25         2.50        29.95         4.01        20.42 
TCGA-78-7143 TCGA-78-7145 TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 
      163.10        27.16        20.58        35.93        39.48        24.99 
TCGA-78-7154 TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 
       19.50        32.09         5.88        22.29       104.15         8.48 
TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-86-8076 TCGA-86-8280 
       88.11        53.33        28.96        32.68         0.85         0.53 
TCGA-86-8668 TCGA-91-6835 TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 TCGA-95-7567 
        1.45         1.15         0.92         1.02         9.76         5.36 
TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 
        1.32         4.34        31.66        47.18        48.53        43.76 
TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-97-8174 TCGA-97-8179 TCGA-99-7458 
        5.95         0.59         0.72         5.36         0.49         8.22 
TCGA-99-8028 
       15.06 

$subtype2
TCGA-05-4250 TCGA-05-4382 TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 
        3.98        19.92        37.02         9.96        24.03        47.05 
TCGA-05-4402 TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 TCGA-05-4420 TCGA-05-4424 
        8.02         2.96        14.93         8.98        29.95        30.02 
TCGA-05-4430 TCGA-05-4432 TCGA-05-4434 TCGA-05-5420 TCGA-05-5423 TCGA-05-5425 
       25.02        25.02        15.02         1.02         4.96         2.96 
TCGA-05-5715 TCGA-35-4122 TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4628 
        2.04         7.36         5.95         8.68        47.61        49.02 
TCGA-38-4630 TCGA-38-4631 TCGA-38-4632 TCGA-44-2656 TCGA-44-2659 TCGA-44-2662 
       35.28        11.64        44.61        19.10        17.39        15.78 
TCGA-44-2668 TCGA-44-3396 TCGA-44-3918 TCGA-44-5643 TCGA-44-5644 TCGA-44-7660 
        8.09        10.22         6.44         3.48        16.37         5.33 
TCGA-44-7667 TCGA-44-7670 TCGA-44-8117 TCGA-44-8119 TCGA-49-4488 TCGA-49-4494 
       18.31        17.46         8.52         3.22        28.57        35.54 
TCGA-49-4501 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6743 TCGA-50-5049 
       46.72        32.84         8.81        43.20        12.13        48.82 
TCGA-50-5066 TCGA-50-5930 TCGA-50-5931 TCGA-50-5935 TCGA-50-5946 TCGA-50-6590 
        9.76         9.27         8.78        21.47        11.47        42.31 
TCGA-50-6592 TCGA-50-6594 TCGA-53-7624 TCGA-53-7813 TCGA-55-1592 TCGA-55-1594 
       25.51        12.16        35.11        13.74        23.05        38.73 
TCGA-55-1595 TCGA-55-1596 TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6971 
       48.62        45.17         2.86        42.48        40.70         0.92 
TCGA-55-6979 TCGA-55-6981 TCGA-55-6987 TCGA-55-7815 TCGA-55-7907 TCGA-55-7910 
        7.76        45.34        38.47         1.78         0.53         6.48 
TCGA-55-8087 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 TCGA-55-8301 TCGA-55-8511 
        0.69         3.02         0.85         0.13         1.41         0.30 
TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 TCGA-55-8620 TCGA-64-1676 TCGA-64-1677 
        6.97         0.49         1.58         2.14        56.81        20.65 
TCGA-64-1678 TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 TCGA-67-3771 TCGA-67-3772 
       39.09        83.84         0.10        16.67         1.97         0.59 
TCGA-67-3773 TCGA-69-7760 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 
        2.04         5.06         7.56         6.05         2.30         2.93 
TCGA-69-7980 TCGA-69-8255 TCGA-73-4659 TCGA-73-7499 TCGA-78-7146 TCGA-78-7147 
       12.56         4.21        23.38        17.06         5.65        19.27 
TCGA-78-7150 TCGA-78-7155 TCGA-78-7159 TCGA-78-7161 TCGA-78-7220 TCGA-78-7535 
       21.86        38.50        40.11         7.04        26.53        31.20 
TCGA-78-7536 TCGA-78-7539 TCGA-78-7542 TCGA-83-5908 TCGA-86-7701 TCGA-86-7711 
        8.02        10.75        10.55        13.81         0.36         0.89 
TCGA-86-7713 TCGA-86-7953 TCGA-86-8054 TCGA-86-8075 TCGA-86-8279 TCGA-86-8585 
        0.23         1.12         0.62         1.41         0.69         1.12 
TCGA-86-8671 TCGA-91-6828 TCGA-91-6830 TCGA-91-6831 TCGA-91-6836 TCGA-91-6847 
        0.56         1.22         0.03         1.28         0.36        26.93 
TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 TCGA-97-8172 TCGA-99-8025 
        6.08         1.12         0.07         0.69         5.95        14.04 
TCGA-99-8032 TCGA-99-8033 TCGA-J2-8194 
        1.45         5.56         3.72 

$subtype3
TCGA-05-4249 TCGA-05-4405 TCGA-38-4627 TCGA-38-4629 TCGA-38-6178 TCGA-44-2665 
       38.07        20.05        37.71        28.37         5.19        13.15 
TCGA-44-6144 TCGA-44-6774 TCGA-44-6775 TCGA-44-6778 TCGA-44-6779 TCGA-44-7662 
        0.30         5.42         2.70        36.49        16.41         1.64 
TCGA-44-7669 TCGA-49-4512 TCGA-49-6742 TCGA-49-6761 TCGA-50-5044 TCGA-50-5072 
       18.87        29.75        15.02         0.03        20.48         8.05 
TCGA-50-5933 TCGA-50-5939 TCGA-50-6591 TCGA-50-6595 TCGA-55-6543 TCGA-55-6642 
       77.88        15.12         3.88         6.21         0.07        32.61 
TCGA-55-6978 TCGA-55-6980 TCGA-55-6982 TCGA-55-6983 TCGA-55-6985 TCGA-55-7726 
        5.46         2.20        32.71        60.03        40.54         1.02 
TCGA-55-7816 TCGA-55-8299 TCGA-64-1679 TCGA-64-5781 TCGA-71-6725 TCGA-73-4658 
        1.02         7.07        55.40        39.52         2.01        52.57 
TCGA-73-4675 TCGA-78-7163 TCGA-86-8055 TCGA-86-8074 TCGA-86-8278 TCGA-91-6829 
        1.32       223.96         0.33         0.79         0.76        41.33 
TCGA-91-6848 TCGA-93-7348 TCGA-97-7554 TCGA-97-8177 TCGA-J2-8192 
        4.18         4.18         8.65         4.80         5.03 

subtype1 subtype2 subtype3 
    0.10     0.03     0.03 
subtype1 subtype2 subtype3 
  163.10    83.84   223.96 
subtype1 subtype2 subtype3 
    8.48     8.81     8.05 
[1] "0.1 - 163.1 (8.5)" "0.0 - 83.8 (8.8)"  "0.0 - 224.0 (8.1)"
  [1] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [49] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [67] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[175] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[193] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[223] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[241] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[265] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[277] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[283] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[301] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[307] "subtype2" "subtype3" "subtype2"
  [1] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [49] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [67] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[175] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[193] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[223] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[241] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[265] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[277] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[283] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[301] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[307] "subtype2" "subtype3" "subtype2"
  [1] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [49] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [67] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[175] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[193] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[223] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[241] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[265] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[271] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[277] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[283] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[301] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[307] "subtype2" "subtype3" "subtype2"
D9V2, continuous
D9V3, binary
          cls
clus        0  1
  subtype1 79 62
  subtype2 80 75
  subtype3 30 21
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   79   62
  subtype2   80   75
  subtype3   30   21
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       79       80       30
  MALE         62       75       21
D9V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
      11       13        2 
 [1] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                32
  subtype2                          5                                38
  subtype3                          0                                 4
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 74
  subtype2                                                100
  subtype3                                                 37
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          3
  subtype2                                          0
  subtype3                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             4
  subtype3                                             2
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  2
  subtype2                              2                                  0
  subtype3                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             9
  subtype2                            0                             3
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 4
  subtype2                                 0
  subtype3                                 3
D9V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 52 70 11  7
  subtype2 35 95 16  8
  subtype3 14 31  3  2
D9V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 88 27    20
  subtype2 99 28    25
  subtype3 25 14    11
D9V7, multiclass
          vv
clus        M0  M1 M1B  MX
  subtype1  92   6   1  38
  subtype2 112   8   2  31
  subtype3  30   1   0  18
D9V8, multiclass
          vv
clus        I II III IV
  subtype1 80 29  19  8
  subtype2 83 32  31  9
  subtype3 20 14  14  2
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1  10 131
  subtype2   7 148
  subtype3   2  49
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10  131
  subtype2    7  148
  subtype3    2   49
     clus
vv    subtype1 subtype2 subtype3
  NO        10        7        2
  YES      131      148       49
D9V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          45
  subtype2                                          53
  subtype3                                          18
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     50             21
  subtype2                                     28             49
  subtype3                                      8              9
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  18
  subtype2                  21
  subtype3                  14
D9V12, multiclass
D9V13, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  77   3   1   5
  subtype2 100   5   3   3
  subtype3  19   1   0   4
D9V14, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2       0  1
  subtype1 99 31
  subtype2 60 30
  subtype3 70 19
subtype1 subtype2 subtype3 
     130       90       89 
subtype1 subtype2 subtype3 
      31       30       19 
$subtype1
TCGA-05-4384 TCGA-05-4405 TCGA-05-4426 TCGA-05-4433 TCGA-05-5429 TCGA-35-3615 
       14.01        20.05        26.01        24.00         0.99         0.46 
TCGA-38-4626 TCGA-38-7271 TCGA-44-2655 TCGA-44-2657 TCGA-44-2661 TCGA-44-2666 
       85.32        26.30        18.87        13.15         3.39         3.19 
TCGA-44-3398 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 TCGA-44-6145 TCGA-44-6146 
        8.32         6.21         4.60         6.84         3.35         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6775 TCGA-44-6776 TCGA-44-6777 TCGA-44-6779 
        7.76         3.12         2.70        63.72        32.45        16.41 
TCGA-44-7659 TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-49-4487 TCGA-49-4505 
        9.80         5.03        17.59        13.74        28.11        14.07 
TCGA-49-4510 TCGA-49-4512 TCGA-49-6744 TCGA-49-6745 TCGA-50-5044 TCGA-50-5045 
       29.46        29.75        12.99         4.93        20.48        71.47 
TCGA-50-5051 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5936 TCGA-50-5942 
       14.96        25.81        49.28        35.87         8.45         4.44 
TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 TCGA-53-7626 TCGA-55-6712 TCGA-55-6970 
       12.26        11.05        33.37        31.89         0.79        15.25 
TCGA-55-6972 TCGA-55-6983 TCGA-55-6984 TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 
       48.49        60.03        24.99        71.05         2.01         0.59 
TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7576 TCGA-55-7725 TCGA-55-7727 
        1.12         0.13         3.12         1.32         1.28         1.02 
TCGA-55-7728 TCGA-55-7816 TCGA-55-7903 TCGA-55-7911 TCGA-55-7914 TCGA-55-8087 
        0.79         1.02         0.62         0.69         0.10         0.69 
TCGA-55-8090 TCGA-55-8097 TCGA-55-8512 TCGA-55-8513 TCGA-55-8616 TCGA-55-8619 
        0.20         0.49         0.10         4.80         1.58         1.61 
TCGA-55-8621 TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 TCGA-64-5815 TCGA-67-3770 
        3.45        37.02        44.38        30.44         7.33         0.99 
TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 
        0.59         0.89         0.69        13.87         6.12        22.68 
TCGA-69-7764 TCGA-69-7765 TCGA-69-8253 TCGA-69-8254 TCGA-71-6725 TCGA-73-4658 
       13.61         4.24         3.25         2.50         2.01        52.57 
TCGA-73-4675 TCGA-73-4676 TCGA-73-7498 TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 
        1.32         4.01        20.42       163.10        27.16        19.27 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 TCGA-78-7154 TCGA-78-7156 
       20.58        35.93        39.48        24.99        19.50        32.09 
TCGA-78-7158 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 TCGA-78-7167 TCGA-78-7537 
        5.88        22.29       104.15         8.48        88.11        53.33 
TCGA-78-7540 TCGA-78-7633 TCGA-86-8076 TCGA-86-8278 TCGA-86-8280 TCGA-91-6835 
       28.96        32.68         0.85         0.76         0.53         1.15 
TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 
        0.92         1.02         9.76         1.32         4.34        31.66 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 
       47.18        48.53        43.76         5.95         0.59         0.72 
TCGA-97-8172 TCGA-97-8174 TCGA-97-8179 TCGA-99-7458 
        5.95         5.36         0.49         8.22 

$subtype2
TCGA-05-4249 TCGA-05-4250 TCGA-05-4397 TCGA-05-4434 TCGA-05-5423 TCGA-35-4122 
       38.07         3.98        24.03        15.02         4.96         7.36 
TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4627 TCGA-38-4628 TCGA-38-4629 
        5.95         8.68        47.61        37.71        49.02        28.37 
TCGA-38-4630 TCGA-38-4631 TCGA-38-4632 TCGA-38-6178 TCGA-44-2662 TCGA-44-2665 
       35.28        11.64        44.61         5.19        15.78        13.15 
TCGA-44-2668 TCGA-44-5643 TCGA-44-6774 TCGA-44-7662 TCGA-44-8117 TCGA-49-4488 
        8.09         3.48         5.42         1.64         8.52        28.57 
TCGA-49-4494 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6761 TCGA-50-5066 
       35.54        32.84         8.81        43.20         0.03         9.76 
TCGA-50-5930 TCGA-50-5931 TCGA-50-5933 TCGA-50-5941 TCGA-50-6590 TCGA-50-6591 
        9.27         8.78        77.88         9.37        42.31         3.88 
TCGA-50-6592 TCGA-50-6594 TCGA-50-6595 TCGA-53-7624 TCGA-55-6543 TCGA-55-6971 
       25.51        12.16         6.21        35.11         0.07         0.92 
TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6985 
        5.46         7.76         2.20        45.34        32.71        40.54 
TCGA-55-7726 TCGA-55-8089 TCGA-55-8299 TCGA-55-8301 TCGA-55-8510 TCGA-55-8511 
        1.02         3.02         7.07         1.41         7.46         0.30 
TCGA-64-1676 TCGA-64-5775 TCGA-64-5781 TCGA-67-3772 TCGA-69-7974 TCGA-69-7978 
       56.81         0.10        39.52         0.59         6.05         2.30 
TCGA-69-7979 TCGA-69-7980 TCGA-73-4659 TCGA-78-7155 TCGA-78-7163 TCGA-78-7535 
        2.93        12.56        23.38        38.50       223.96        31.20 
TCGA-78-7542 TCGA-83-5908 TCGA-86-7953 TCGA-86-8054 TCGA-86-8074 TCGA-86-8075 
       10.55        13.81         1.12         0.62         0.79         1.41 
TCGA-86-8279 TCGA-86-8668 TCGA-86-8671 TCGA-91-6847 TCGA-91-6848 TCGA-93-7348 
        0.69         1.45         0.56        26.93         4.18         4.18 
TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7567 TCGA-95-7944 TCGA-97-7554 
        6.08         1.12         0.07         5.36         0.69         8.65 
TCGA-97-8177 TCGA-99-8025 TCGA-99-8028 TCGA-99-8033 TCGA-J2-8192 TCGA-J2-8194 
        4.80        14.04        15.06         5.56         5.03         3.72 

$subtype3
TCGA-05-4382 TCGA-05-4390 TCGA-05-4396 TCGA-05-4398 TCGA-05-4402 TCGA-05-4415 
       19.92        37.02         9.96        47.05         8.02         2.96 
TCGA-05-4417 TCGA-05-4418 TCGA-05-4420 TCGA-05-4424 TCGA-05-4427 TCGA-05-4430 
       14.93         8.98        29.95        30.02        26.01        25.02 
TCGA-05-4432 TCGA-05-5420 TCGA-05-5425 TCGA-05-5715 TCGA-44-2656 TCGA-44-2659 
       25.02         1.02         2.96         2.04        19.10        17.39 
TCGA-44-3396 TCGA-44-3918 TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 TCGA-44-7660 
       10.22         6.44        16.37         0.30        36.49         5.33 
TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 TCGA-44-8119 TCGA-49-4486 TCGA-49-4490 
       18.31        18.87        17.46         3.22        76.21        12.66 
TCGA-49-4501 TCGA-49-6742 TCGA-49-6743 TCGA-50-5049 TCGA-50-5072 TCGA-50-5935 
       46.72        15.02        12.13        48.82         8.05        21.47 
TCGA-50-5939 TCGA-50-5946 TCGA-50-6673 TCGA-50-7109 TCGA-53-7813 TCGA-55-1592 
       15.12        11.47         0.72         8.38        13.74        23.05 
TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 
       38.73        48.62        45.17         2.86        32.61        42.48 
TCGA-55-6969 TCGA-55-6987 TCGA-55-7815 TCGA-55-7907 TCGA-55-7910 TCGA-55-8092 
       40.70        38.47         1.78         0.53         6.48         0.85 
TCGA-55-8094 TCGA-55-8514 TCGA-55-8615 TCGA-55-8620 TCGA-62-8399 TCGA-64-1677 
        0.13         6.97         0.49         2.14        68.81        20.65 
TCGA-64-1678 TCGA-64-1679 TCGA-64-5774 TCGA-64-5779 TCGA-67-3771 TCGA-67-3773 
       39.09        55.40        83.84        16.67         1.97         2.04 
TCGA-69-7760 TCGA-69-7973 TCGA-69-8255 TCGA-73-4662 TCGA-73-7499 TCGA-78-7146 
        5.06         7.56         4.21        29.95        17.06         5.65 
TCGA-78-7150 TCGA-78-7159 TCGA-78-7161 TCGA-78-7220 TCGA-78-7536 TCGA-78-7539 
       21.86        40.11         7.04        26.53         8.02        10.75 
TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-8055 TCGA-86-8585 TCGA-91-6828 
        0.36         0.89         0.23         0.33         1.12         1.22 
TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6836 TCGA-99-8032 
       41.33         0.03         1.28         0.36         1.45 

subtype1 subtype2 subtype3 
    0.10     0.03     0.03 
subtype1 subtype2 subtype3 
  163.10   223.96    83.84 
subtype1 subtype2 subtype3 
   8.385    7.925   12.130 
[1] "0.1 - 163.1 (8.4)" "0.0 - 224.0 (7.9)" "0.0 - 83.8 (12.1)"
  [1] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [19] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[181] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[199] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[229] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[241] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[253] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[271] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[277] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[307] "subtype2" "subtype2" "subtype2"
  [1] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [19] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[181] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[199] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[229] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[241] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[253] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[271] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[277] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[307] "subtype2" "subtype2" "subtype2"
  [1] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [19] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[181] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[199] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[229] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[241] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[253] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[271] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[277] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[307] "subtype2" "subtype2" "subtype2"
D10V2, continuous
D10V3, binary
          cls
clus        0  1
  subtype1 84 60
  subtype2 61 39
  subtype3 44 59
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   84   60
  subtype2   61   39
  subtype3   44   59
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       84       61       44
  MALE         60       39       59
D10V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          6                                31
  subtype2                          2                                15
  subtype3                          2                                28
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 76
  subtype2                                                 72
  subtype3                                                 63
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          2
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             3
  subtype3                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  2
  subtype2                              0                                  0
  subtype3                              2                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             9
  subtype2                            0                             6
  subtype3                            0                             1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             3
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA
  subtype1                                 6
  subtype2                                 0
  subtype3                                 1
D10V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 47 75 12  8
  subtype2 23 62  9  5
  subtype3 31 59  9  4
D10V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 89 30    18
  subtype2 59 21    19
  subtype3 64 18    19
D10V7, multiclass
          vv
clus       M0 M1 M1B MX
  subtype1 92  6   1 41
  subtype2 68  6   0 23
  subtype3 74  3   2 23
D10V8, multiclass
          vv
clus        I II III IV
  subtype1 79 32  19  9
  subtype2 50 20  23  6
  subtype3 54 23  22  4
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   8 136
  subtype2   5  95
  subtype3   6  97
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8  136
  subtype2    5   95
  subtype3    6   97
     clus
vv    subtype1 subtype2 subtype3
  NO         8        5        6
  YES      136       95       97
D10V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          47
  subtype2                                          32
  subtype3                                          37
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     48             20
  subtype2                                     19             25
  subtype3                                     19             34
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  21
  subtype2                  21
  subtype3                  11
D10V12, multiclass
D10V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 76  3  1  8
  subtype2 55  4  2  3
  subtype3 65  2  1  1
D10V14, multiclass
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
           "KARNOFSKY.PERFORMANCE.SCORE" 
                                      V5 
                     "HISTOLOGICAL.TYPE" 
                                      V6 
                           "PATHOLOGY.T" 
                                      V7 
                           "PATHOLOGY.N" 
                                      V8 
                   "PATHOLOGICSPREAD(M)" 
                                      V9 
                           "TUMOR.STAGE" 
                                     V10 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                     V11 
                 "NUMBERPACKYEARSSMOKED" 
                                     V12 
        "TOBACCOSMOKINGHISTORYINDICATOR" 
                                     V13 
             "YEAROFTOBACCOSMOKINGONSET" 
                                     V14 
             "COMPLETENESS.OF.RESECTION" 
> q(save="no")
