
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/3145444/1.GDAC_mergedClustering.Finished/LUAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/LUAD-TP/3132696/1.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=395, in cluster file=477, common to both=393
[1]  10 393
[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 
120 152  74  43 
  1   2   3   4 
120 152  74  43 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3  4  5 
69 78 73 81 22 
 1  2  3  4  5 
69 78 73 81 22 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
86 75 76 
 1  2  3 
86 75 76 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
23 90 66 58 
 1  2  3  4 
23 90 66 58 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4  5  6  7  8  9 
68 50 50 39 26 43 36 21 21 
 1  2  3  4  5  6  7  8  9 
68 50 50 39 26 43 36 21 21 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
146  96 112 
  1   2   3 
146  96 112 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
140 165  81 
  1   2   3 
140 165  81 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
133 208  45 
  1   2   3 
133 208  45 
[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 393 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-44-A479 TCGA-44-A47A TCGA-44-A47F TCGA-44-A47G TCGA-44-A4SS TCGA-44-A4SU 
         255          202          246          135          114           76 
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-86-7955 TCGA-86-8054 TCGA-86-8055 
          NA           34           NA           14           19           10 
TCGA-86-8056 TCGA-86-8073 TCGA-86-8074 TCGA-86-8075 TCGA-86-8076 TCGA-86-8278 
          NA           13           24           43           26           23 
TCGA-86-8279 TCGA-86-8280 TCGA-86-8281 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 
          21           16           NA           19           26           34 
TCGA-86-8668 TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 TCGA-86-8673 TCGA-86-8674 
          44           33           17           15           NA           NA 
TCGA-86-A456 TCGA-86-A4D0 TCGA-86-A4P8 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 
          10           30           39           37           NA            1 
TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 
          39           35           11           NA          819          127 
TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 TCGA-93-7348 TCGA-93-8067 TCGA-95-7039 
          28           31          297          127          185           34 
TCGA-95-7043 TCGA-95-7567 TCGA-95-7944 TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 
           2          163           21           40          132          963 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 
        1435         1476         1331          263          181           NA 
TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 TCGA-97-8179 
          22          106          181           NA          146           15 
TCGA-99-7458 TCGA-99-8025 TCGA-99-8028 TCGA-99-8032 TCGA-99-8033 TCGA-J2-8192 
         250          427          458           44          169          153 
TCGA-J2-8194 TCGA-J2-A4AD TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E5 TCGA-L4-A4E6 
         113          287          282          238          212           76 
TCGA-L9-A443 TCGA-L9-A444 TCGA-MN-A4N4 
         116            6          621 
Variable 1:'AGE':	nDistinctValues=49,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=84,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=227,	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=12,	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=3,	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=55,	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 
151  61  58  17 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "5"          
[1] "PATHOLOGY.N" "6"          
Output Data has 393 columns, 1 survival variables, and 13 non-survival variables.
AGE, nv=49, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=6, binary=FALSE, numeric=TRUE
HISTOLOGICAL.TYPE, nv=12, binary=FALSE, numeric=FALSE
PATHOLOGY.T, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
 81 170  23  16 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
 81 170  23  16 
$ClinVariableName
[1] "PATHOLOGY.T"

$Table
vv
 T1  T2  T3  T4 
 81 170  23  16 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
 81 170  23  16 
PATHOLOGY.N, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
174  59  51   1 
[1] "table(vv)"
vv
   N0    N1 N2+N3 
  174    59    52 
$ClinVariableName
[1] "PATHOLOGY.N"

$Table
vv
 N0  N1  N2  N3 
174  59  51   1 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   N0    N1 N2+N3 
  174    59    52 
PATHOLOGICSPREAD(M), nv=3, binary=FALSE, numeric=FALSE
TUMOR.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('TUMOR.?STAGE$',vnm)"
vv
  I  II III  IV 
151  61  58  17 
[1] "table(vv)"
vv
  I  II III  IV 
151  61  58  17 
$ClinVariableName
[1] "TUMOR.STAGE"

$Table
vv
  I  II III  IV 
151  61  58  17 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


  I  II III  IV 
151  61  58  17 
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=55, 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  79  28
  subtype2 108  29
  subtype3  46  20
  subtype4  31   8
subtype1 subtype2 subtype3 subtype4 
     107      137       66       39 
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-44-A4SU TCGA-49-4488 TCGA-49-4490 TCGA-49-4501 
        1.64         8.52         2.50        28.57        12.66        46.72 
TCGA-49-4505 TCGA-49-4512 TCGA-49-6761 TCGA-50-5066 TCGA-50-5930 TCGA-50-5933 
       14.07        29.75         0.03         9.76         9.27        77.88 
TCGA-50-5941 TCGA-50-5944 TCGA-50-5946 TCGA-50-6591 TCGA-50-6593 TCGA-50-6594 
        9.37        12.26        11.47         3.88        11.05        12.16 
TCGA-50-6597 TCGA-55-1592 TCGA-55-1595 TCGA-55-6543 TCGA-55-6712 TCGA-55-6972 
       33.37        23.05        48.62         0.07         0.79        48.49 
TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6985 TCGA-55-7573 
        7.76         2.20        45.34        32.71        40.54         0.13 
TCGA-55-7727 TCGA-55-7903 TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 TCGA-55-8616 
        1.02         0.62         7.46         0.30         6.97         1.58 
TCGA-55-A48Z TCGA-55-A490 TCGA-55-A4DG TCGA-62-8399 TCGA-62-A46O TCGA-62-A472 
        0.95         1.58         5.29        68.81        47.77        17.75 
TCGA-64-1676 TCGA-64-1679 TCGA-64-1681 TCGA-64-5778 TCGA-67-3770 TCGA-67-6217 
       56.81        55.40        44.38        30.44         0.99        13.87 
TCGA-69-7979 TCGA-71-6725 TCGA-73-4668 TCGA-73-4676 TCGA-73-7499 TCGA-78-7143 
        2.93         2.01        15.35         4.01        17.06       163.10 
TCGA-78-7145 TCGA-78-7147 TCGA-78-7155 TCGA-78-7163 TCGA-78-7535 TCGA-78-7539 
       27.16        19.27        38.50       223.96        31.20        10.75 
TCGA-78-7542 TCGA-83-5908 TCGA-86-7711 TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 
       10.55        13.81         0.89         0.46         0.62         0.33 
TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 TCGA-86-8280 TCGA-86-8358 TCGA-86-8359 
        0.79         1.41         0.69         0.53         0.62         0.85 
TCGA-86-8668 TCGA-91-6829 TCGA-91-6847 TCGA-91-6848 TCGA-95-7039 TCGA-95-7947 
        1.45        41.33        26.93         4.18         1.12         1.32 
TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-8171 TCGA-99-8025 TCGA-J2-8192 
        8.65         5.95         0.59         3.48        14.04         5.03 
TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N4 
        3.72         9.44         6.97         0.20        20.42 

$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-44-A47A TCGA-44-A47F TCGA-44-A47G TCGA-44-A4SS TCGA-49-4486 TCGA-49-4487 
        6.64         8.09         4.44         3.75        76.21        28.11 
TCGA-49-4494 TCGA-49-4506 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-49-6744 
       35.54        32.84        43.20        15.02        12.13        12.99 
TCGA-49-6745 TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 TCGA-50-5068 
        4.93        20.48        71.47        48.82        25.81        49.28 
TCGA-50-5932 TCGA-50-5939 TCGA-50-5942 TCGA-50-6590 TCGA-50-6595 TCGA-50-6673 
       35.87        15.12         4.44        42.31         6.21         0.72 
TCGA-53-7626 TCGA-55-6642 TCGA-55-6975 TCGA-55-6978 TCGA-55-6983 TCGA-55-6984 
       31.89        32.61         3.88         5.46        60.03        24.99 
TCGA-55-6986 TCGA-55-6987 TCGA-55-7281 TCGA-55-7283 TCGA-55-7574 TCGA-55-7725 
       71.05        38.47         0.59         1.12         3.12         1.28 
TCGA-55-7728 TCGA-55-7815 TCGA-55-7911 TCGA-55-7914 TCGA-55-8087 TCGA-55-8089 
        0.79         1.78         0.69         0.10         0.69         3.02 
TCGA-55-8090 TCGA-55-8097 TCGA-55-8299 TCGA-55-8301 TCGA-55-8512 TCGA-55-8513 
        0.20         0.49         7.07         1.41         0.10         4.80 
TCGA-55-8619 TCGA-55-8620 TCGA-55-8621 TCGA-55-A48X TCGA-55-A48Y TCGA-55-A492 
        1.61         2.14         3.45         1.08         1.02         0.03 
TCGA-64-1680 TCGA-64-5781 TCGA-64-5815 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 
       37.02        39.52         7.33         0.59         2.04         0.59 
TCGA-67-6215 TCGA-67-6216 TCGA-69-7761 TCGA-69-7763 TCGA-69-7765 TCGA-69-7974 
        0.89         0.69         6.12        22.68         4.24         6.05 
TCGA-69-7978 TCGA-69-8253 TCGA-69-8254 TCGA-73-4658 TCGA-73-4677 TCGA-73-7498 
        2.30         3.25         2.50        52.57         1.25        20.42 
TCGA-78-7152 TCGA-78-7153 TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 TCGA-78-7162 
       39.48        24.99        32.09         5.88        22.29       104.15 
TCGA-78-7166 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-86-8073 TCGA-86-8076 
        8.48        53.33        28.96        32.68         0.43         0.85 
TCGA-86-8278 TCGA-86-8671 TCGA-86-8672 TCGA-86-A456 TCGA-86-A4P8 TCGA-91-6830 
        0.76         0.56         0.49         0.33         1.28         0.03 
TCGA-91-6835 TCGA-91-6849 TCGA-93-7347 TCGA-93-7348 TCGA-95-7944 TCGA-97-7546 
        1.15         0.92         9.76         4.18         0.69        31.66 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7941 TCGA-97-8174 TCGA-97-8177 
       47.18        48.53        43.76         0.72         5.36         4.80 
TCGA-99-7458 TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
        8.22        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-44-A479 TCGA-49-4507 TCGA-49-4510 
       18.31        18.87        17.46         8.38         8.81        29.46 
TCGA-50-5072 TCGA-50-5931 TCGA-50-5936 TCGA-50-6592 TCGA-53-7624 TCGA-53-7813 
        8.05         8.78         8.45        25.51        35.11        13.74 
TCGA-55-1594 TCGA-55-1596 TCGA-55-6971 TCGA-55-7576 TCGA-55-7726 TCGA-55-7907 
       38.73        45.17         0.92         1.32         1.02         0.53 
TCGA-55-7910 TCGA-55-8092 TCGA-55-8094 TCGA-55-8615 TCGA-55-A493 TCGA-64-1678 
        6.48         0.85         0.13         0.49         0.92        39.09 
TCGA-64-5775 TCGA-67-3771 TCGA-69-7760 TCGA-69-7980 TCGA-69-8255 TCGA-73-4662 
        0.10         1.97         5.06        12.56         4.21        29.95 
TCGA-73-4666 TCGA-73-4670 TCGA-78-7146 TCGA-78-7148 TCGA-78-7150 TCGA-78-7154 
       20.28         0.46         5.65        20.58        21.86        19.50 
TCGA-78-7161 TCGA-78-7167 TCGA-78-7220 TCGA-86-7713 TCGA-86-7953 TCGA-86-8669 
        7.04        88.11        26.53         0.23         1.12         1.08 
TCGA-91-6836 TCGA-91-7771 TCGA-93-8067 TCGA-95-7567 TCGA-99-8033 TCGA-L9-A443 
        0.36         1.02         6.08         5.36         5.56         3.81 

$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-86-A4D0 TCGA-91-6828 TCGA-91-6831 TCGA-95-7043 TCGA-95-7948 
        1.12         0.99         1.22         1.28         0.07         4.34 
TCGA-97-8172 TCGA-97-8179 TCGA-99-8032 
        5.95         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 
   9.270    6.640    8.235    8.380 
[1] "0.0 - 224.0 (9.3)" "0.0 - 104.2 (6.6)" "0.1 - 88.1 (8.2)" 
[4] "0.1 - 83.8 (8.4)" 
  [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" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[109] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype4" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[145] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[157] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[163] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[169] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[187] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
[199] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype1"
[205] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[211] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[217] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[229] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[235] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[241] "subtype3" "subtype3" "subtype1" "subtype3" "subtype4" "subtype1"
[247] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[253] "subtype1" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[259] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[271] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype4" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype4" "subtype2" "subtype4" "subtype1" "subtype2" "subtype4"
[307] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[313] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
[319] "subtype2" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[331] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
[343] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[349] "subtype1"
  [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" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[109] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype4" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[145] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[157] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[163] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[169] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[187] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
[199] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype1"
[205] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[211] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[217] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[229] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[235] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[241] "subtype3" "subtype3" "subtype1" "subtype3" "subtype4" "subtype1"
[247] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[253] "subtype1" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[259] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[271] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype4" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype4" "subtype2" "subtype4" "subtype1" "subtype2" "subtype4"
[307] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[313] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
[319] "subtype2" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[331] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
[343] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[349] "subtype1"
  [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" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[109] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype4" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[145] "subtype4" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[157] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[163] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[169] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[187] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
[199] "subtype1" "subtype1" "subtype1" "subtype4" "subtype4" "subtype1"
[205] "subtype1" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[211] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[217] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[229] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype3"
[235] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[241] "subtype3" "subtype3" "subtype1" "subtype3" "subtype4" "subtype1"
[247] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[253] "subtype1" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[259] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[265] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[271] "subtype1" "subtype4" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype4" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype4" "subtype2" "subtype4" "subtype1" "subtype2" "subtype4"
[307] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[313] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
[319] "subtype2" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[331] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
[343] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[349] "subtype1"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 70 50
  subtype2 87 65
  subtype3 37 37
  subtype4 17 26
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   70   50
  subtype2   87   65
  subtype3   37   37
  subtype4   17   26
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       70       87       37       17
  MALE         50       65       37       26
D3V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          3                                21
  subtype2                          3                                34
  subtype3                          1                                14
  subtype4                          4                                10
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 76
  subtype2                                                 87
  subtype3                                                 53
  subtype4                                                 27
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          2
  subtype3                                          0
  subtype4                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             8
  subtype2                                             7
  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                             6
  subtype2                            2                             9
  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 MUCINOUS (COLLOID) CARCINOMA
  subtype1                                 0                            0
  subtype2                                 3                            3
  subtype3                                 1                            0
  subtype4                                 0                            0
D3V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 24 53  4  3
  subtype2 34 61  7  8
  subtype3  8 40  9  4
  subtype4 14 15  2  1
D3V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 48 16    18
  subtype2 69 24    16
  subtype3 35 16    10
  subtype4 20  2     8
D3V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 56  6 20
  subtype2 78  4 26
  subtype3 44  4 11
  subtype4 24  2  6
D3V8, multiclass
          vv
clus        I II III IV
  subtype1 43 16  17  6
  subtype2 64 23  16  5
  subtype3 22 21  14  4
  subtype4 20  1  10  1
D3V9, multiclass
D3V10, binary
          cls
clus         0   1
  subtype1   5 115
  subtype2   7 145
  subtype3   5  69
  subtype4   3  40
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  115
  subtype2    7  145
  subtype3    5   69
  subtype4    3   40
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         5        7        5        3
  YES      115      145       69       40
D3V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          30
  subtype2                                          35
  subtype3                                          23
  subtype4                                          12
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     20             17
  subtype2                                     39             14
  subtype3                                      9             22
  subtype4                                      9              9
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  14
  subtype2                  16
  subtype3                   5
  subtype4                   1
D3V12, multiclass
D3V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 72  3  1  6
  subtype2 88  3  2  5
  subtype3 49  2  1  2
  subtype4 24  1  0  1
D3V14, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 50 11
  subtype2 48 21
  subtype3 56  9
  subtype4 57 17
  subtype5 14  6
subtype1 subtype2 subtype3 subtype4 subtype5 
      61       69       65       74       20 
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-44-A47F TCGA-49-4512 
        2.70        63.72         9.80        17.59         8.09        29.75 
TCGA-50-5932 TCGA-50-5935 TCGA-50-5942 TCGA-50-5944 TCGA-50-6594 TCGA-53-7626 
       35.87        21.47         4.44        12.26        12.16        31.89 
TCGA-55-6543 TCGA-55-6972 TCGA-55-6983 TCGA-55-6986 TCGA-55-7573 TCGA-55-7725 
        0.07        48.49        60.03        71.05         0.13         1.28 
TCGA-55-8087 TCGA-55-8097 TCGA-55-8512 TCGA-55-8513 TCGA-55-A492 TCGA-67-6215 
        0.69         0.49         0.10         4.80         0.03         0.89 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7760 TCGA-69-7763 TCGA-69-7764 TCGA-69-8253 
        0.69        13.87         5.06        22.68        13.61         3.25 
TCGA-69-8254 TCGA-73-7498 TCGA-78-7143 TCGA-78-7156 TCGA-78-7158 TCGA-78-7162 
        2.50        20.42       163.10        32.09         5.88       104.15 
TCGA-78-7163 TCGA-78-7537 TCGA-86-8075 TCGA-86-8280 TCGA-86-8668 TCGA-91-6849 
      223.96        53.33         1.41         0.53         1.45         0.92 
TCGA-93-7348 TCGA-95-7948 TCGA-97-7546 TCGA-97-7547 TCGA-97-7938 TCGA-97-7941 
        4.18         4.34        31.66        47.18         0.59         0.72 
TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 TCGA-99-7458 TCGA-J2-A4AE 
        3.48         5.95         5.36         4.80         8.22         9.27 
TCGA-L9-A443 
        3.81 

$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-86-7955 TCGA-86-8054 TCGA-86-8358 TCGA-86-8359 
       32.68         0.23         0.46         0.62         0.62         0.85 
TCGA-86-8669 TCGA-86-A4D0 TCGA-91-6831 TCGA-91-6847 TCGA-91-7771 TCGA-95-7043 
        1.08         0.99         1.28        26.93         1.02         0.07 
TCGA-99-8032 TCGA-J2-8194 TCGA-J2-A4AD 
        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-44-A47A 
        5.19         7.76         1.64        13.74         8.52         6.64 
TCGA-49-6745 TCGA-49-6761 TCGA-50-5933 TCGA-50-6593 TCGA-50-6597 TCGA-55-6712 
        4.93         0.03        77.88        11.05        33.37         0.79 
TCGA-55-6982 TCGA-55-6985 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7576 
       32.71        40.54         2.01         0.59         1.12         1.32 
TCGA-55-7727 TCGA-55-7815 TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 TCGA-55-7914 
        1.02         1.78         0.62         0.53         0.69         0.10 
TCGA-55-8090 TCGA-55-8092 TCGA-55-8511 TCGA-55-8616 TCGA-55-A4DG TCGA-62-A46P 
        0.20         0.85         0.30         1.58         5.29        19.53 
TCGA-62-A472 TCGA-64-5775 TCGA-64-5815 TCGA-69-7765 TCGA-69-7974 TCGA-71-6725 
       17.75         0.10         7.33         4.24         6.05         2.01 
TCGA-73-4658 TCGA-73-4676 TCGA-78-7152 TCGA-78-7153 TCGA-78-7535 TCGA-78-7539 
       52.57         4.01        39.48        24.99        31.20        10.75 
TCGA-78-7540 TCGA-78-7542 TCGA-83-5908 TCGA-86-7701 TCGA-86-8073 TCGA-86-8278 
       28.96        10.55        13.81         0.36         0.43         0.76 
TCGA-86-8672 TCGA-86-A456 TCGA-91-6828 TCGA-91-6836 TCGA-93-8067 TCGA-95-7039 
        0.49         0.33         1.22         0.36         6.08         1.12 
TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-99-8025 TCGA-L9-A444 
        5.36         8.65         5.95        14.04         0.20 

$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-44-A479 TCGA-44-A47G 
       32.45        36.49        16.41         5.03         8.38         4.44 
TCGA-44-A4SS TCGA-49-4487 TCGA-49-4514 TCGA-49-6743 TCGA-49-6744 TCGA-50-5044 
        3.75        28.11        43.20        12.13        12.99        20.48 
TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 TCGA-50-5066 TCGA-50-5068 TCGA-50-5930 
       71.47        48.82        25.81         9.76        49.28         9.27 
TCGA-50-5939 TCGA-50-5941 TCGA-50-6590 TCGA-50-6592 TCGA-50-6595 TCGA-55-6969 
       15.12         9.37        42.31        25.51         6.21        40.70 
TCGA-55-6971 TCGA-55-6975 TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 
        0.92         3.88         5.46         7.76         2.20        45.34 
TCGA-55-6984 TCGA-55-6987 TCGA-55-7574 TCGA-55-7726 TCGA-55-7728 TCGA-55-7816 
       24.99        38.47         3.12         1.02         0.79         1.02 
TCGA-55-8089 TCGA-55-8299 TCGA-55-8301 TCGA-55-8510 TCGA-55-8619 TCGA-55-8621 
        3.02         7.07         1.41         7.46         1.61         3.45 
TCGA-55-A48X TCGA-55-A493 TCGA-64-1679 TCGA-64-5781 TCGA-69-7761 TCGA-69-7978 
        1.08         0.92        55.40        39.52         6.12         2.30 
TCGA-69-8255 TCGA-78-7160 TCGA-86-7711 TCGA-86-7953 TCGA-86-8076 TCGA-86-8585 
        4.21        22.29         0.89         1.12         0.85         1.12 
TCGA-86-8671 TCGA-86-A4P8 TCGA-91-6830 TCGA-91-6835 TCGA-91-6848 TCGA-93-7347 
        0.56         1.28         0.03         1.15         4.18         9.76 
TCGA-95-7944 TCGA-97-7552 TCGA-97-7553 TCGA-99-8028 TCGA-99-8033 TCGA-J2-A4AG 
        0.69        48.53        43.76        15.06         5.56         7.82 
TCGA-L4-A4E6 TCGA-MN-A4N4 
        2.50        20.42 

$subtype5
TCGA-44-A4SU TCGA-49-4488 TCGA-49-4490 TCGA-55-8514 TCGA-55-A48Z TCGA-64-1681 
        2.50        28.57        12.66         6.97         0.95        44.38 
TCGA-64-5778 TCGA-69-7979 TCGA-69-7980 TCGA-73-7499 TCGA-78-7145 TCGA-78-7147 
       30.44         2.93        12.56        17.06        27.16        19.27 
TCGA-86-8055 TCGA-86-8074 TCGA-86-8279 TCGA-91-6829 TCGA-95-7947 TCGA-97-8179 
        0.33         0.79         0.69        41.33         1.32         0.49 
TCGA-J2-8192 TCGA-L4-A4E5 
        5.03         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 
   5.880    8.480    5.190    6.165    6.970 
[1] "0.0 - 224.0 (5.9)" "0.1 - 88.1 (8.5)"  "0.0 - 77.9 (5.2)" 
[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" "subtype3" "subtype1"
 [49] "subtype4" "subtype4" "subtype5" "subtype4" "subtype5" "subtype5"
 [55] "subtype1" "subtype4" "subtype2" "subtype4" "subtype4" "subtype3"
 [61] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [67] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [73] "subtype3" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
 [79] "subtype1" "subtype2" "subtype4" "subtype2" "subtype4" "subtype3"
 [85] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype4"
[103] "subtype4" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
[109] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[115] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype4"
[121] "subtype3" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[139] "subtype3" "subtype1" "subtype1" "subtype5" "subtype2" "subtype3"
[145] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype5"
[151] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[163] "subtype2" "subtype3" "subtype5" "subtype2" "subtype4" "subtype3"
[169] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[175] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[181] "subtype5" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[187] "subtype3" "subtype1" "subtype5" "subtype1" "subtype5" "subtype2"
[193] "subtype5" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[205] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[211] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[217] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[223] "subtype2" "subtype2" "subtype5" "subtype3" "subtype5" "subtype1"
[229] "subtype4" "subtype3" "subtype5" "subtype1" "subtype2" "subtype2"
[235] "subtype4" "subtype1" "subtype2" "subtype4" "subtype3" "subtype3"
[241] "subtype2" "subtype4" "subtype3" "subtype5" "subtype4" "subtype2"
[247] "subtype4" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[253] "subtype4" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[259] "subtype4" "subtype5" "subtype1" "subtype1" "subtype1" "subtype4"
[265] "subtype4" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype5" "subtype1" "subtype3"
[277] "subtype4" "subtype2" "subtype4" "subtype5" "subtype2" "subtype2"
[283] "subtype1" "subtype4" "subtype5" "subtype4" "subtype1" "subtype3"
[289] "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" "subtype3" "subtype1"
 [49] "subtype4" "subtype4" "subtype5" "subtype4" "subtype5" "subtype5"
 [55] "subtype1" "subtype4" "subtype2" "subtype4" "subtype4" "subtype3"
 [61] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [67] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [73] "subtype3" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
 [79] "subtype1" "subtype2" "subtype4" "subtype2" "subtype4" "subtype3"
 [85] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype4"
[103] "subtype4" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
[109] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[115] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype4"
[121] "subtype3" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[139] "subtype3" "subtype1" "subtype1" "subtype5" "subtype2" "subtype3"
[145] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype5"
[151] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[163] "subtype2" "subtype3" "subtype5" "subtype2" "subtype4" "subtype3"
[169] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[175] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[181] "subtype5" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[187] "subtype3" "subtype1" "subtype5" "subtype1" "subtype5" "subtype2"
[193] "subtype5" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[205] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[211] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[217] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[223] "subtype2" "subtype2" "subtype5" "subtype3" "subtype5" "subtype1"
[229] "subtype4" "subtype3" "subtype5" "subtype1" "subtype2" "subtype2"
[235] "subtype4" "subtype1" "subtype2" "subtype4" "subtype3" "subtype3"
[241] "subtype2" "subtype4" "subtype3" "subtype5" "subtype4" "subtype2"
[247] "subtype4" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[253] "subtype4" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[259] "subtype4" "subtype5" "subtype1" "subtype1" "subtype1" "subtype4"
[265] "subtype4" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype5" "subtype1" "subtype3"
[277] "subtype4" "subtype2" "subtype4" "subtype5" "subtype2" "subtype2"
[283] "subtype1" "subtype4" "subtype5" "subtype4" "subtype1" "subtype3"
[289] "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" "subtype3" "subtype1"
 [49] "subtype4" "subtype4" "subtype5" "subtype4" "subtype5" "subtype5"
 [55] "subtype1" "subtype4" "subtype2" "subtype4" "subtype4" "subtype3"
 [61] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [67] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [73] "subtype3" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
 [79] "subtype1" "subtype2" "subtype4" "subtype2" "subtype4" "subtype3"
 [85] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype2" "subtype4" "subtype1" "subtype4"
[103] "subtype4" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
[109] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[115] "subtype3" "subtype1" "subtype4" "subtype3" "subtype1" "subtype4"
[121] "subtype3" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[139] "subtype3" "subtype1" "subtype1" "subtype5" "subtype2" "subtype3"
[145] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype5"
[151] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[163] "subtype2" "subtype3" "subtype5" "subtype2" "subtype4" "subtype3"
[169] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[175] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype5"
[181] "subtype5" "subtype1" "subtype1" "subtype4" "subtype3" "subtype3"
[187] "subtype3" "subtype1" "subtype5" "subtype1" "subtype5" "subtype2"
[193] "subtype5" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[205] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[211] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[217] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype4"
[223] "subtype2" "subtype2" "subtype5" "subtype3" "subtype5" "subtype1"
[229] "subtype4" "subtype3" "subtype5" "subtype1" "subtype2" "subtype2"
[235] "subtype4" "subtype1" "subtype2" "subtype4" "subtype3" "subtype3"
[241] "subtype2" "subtype4" "subtype3" "subtype5" "subtype4" "subtype2"
[247] "subtype4" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[253] "subtype4" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[259] "subtype4" "subtype5" "subtype1" "subtype1" "subtype1" "subtype4"
[265] "subtype4" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype5" "subtype1" "subtype3"
[277] "subtype4" "subtype2" "subtype4" "subtype5" "subtype2" "subtype2"
[283] "subtype1" "subtype4" "subtype5" "subtype4" "subtype1" "subtype3"
[289] "subtype4"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 45 24
  subtype2 28 50
  subtype3 36 37
  subtype4 51 30
  subtype5 15  7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   45   24
  subtype2   28   50
  subtype3   36   37
  subtype4   51   30
  subtype5   15    7
D4V4, continuous
[1] "Remove cluster labels:" "subtype5"              
clus
subtype1 subtype2 subtype3 subtype4 subtype5 
       6        4        7        3        2 
 [1] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
 [7] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
[13] "subtype4" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
[19] "subtype1" "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                16
  subtype2                          3                                16
  subtype3                          0                                18
  subtype4                          1                                11
  subtype5                          2                                 3
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 30
  subtype2                                                 51
  subtype3                                                 45
  subtype4                                                 55
  subtype5                                                 14
          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                                             3
  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                             4
  subtype2                            0                             4
  subtype3                            0                             4
  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 MUCINOUS (COLLOID) CARCINOMA
  subtype1                                 1                            1
  subtype2                                 2                            0
  subtype3                                 0                            1
  subtype4                                 1                            1
  subtype5                                 0                            0
D4V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 18 23  4  3
  subtype2 13 34  5  4
  subtype3 14 34  4  3
  subtype4 16 31  3  2
  subtype5  2  5  1  1
D4V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 33  8     7
  subtype2 34  9    12
  subtype3 31 13    10
  subtype4 28 11    12
  subtype5  5  3     1
D4V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 33  1 13
  subtype2 37  4 14
  subtype3 31  3 18
  subtype4 34  1 18
  subtype5  6  1  2
D4V8, multiclass
          vv
clus        I II III IV
  subtype1 29  9   8  1
  subtype2 26 12  15  3
  subtype3 25 12  11  4
  subtype4 27 12  12  2
  subtype5  5  2   1  1
D4V9, multiclass
D4V10, binary
          cls
clus        0  1
  subtype1  2 67
  subtype2  4 74
  subtype3  3 70
  subtype4  6 75
  subtype5  1 21
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   67
  subtype2    4   74
  subtype3    3   70
  subtype4    6   75
  subtype5    1   21
D4V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          13
  subtype2                                          22
  subtype3                                          17
  subtype4                                          22
  subtype5                                           3
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     20              4
  subtype2                                      9             20
  subtype3                                     16             14
  subtype4                                     11              7
  subtype5                                      3              1
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   9
  subtype2                   3
  subtype3                   7
  subtype4                   6
  subtype5                   2
D4V12, multiclass
D4V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 33  1  0  3
  subtype2 46  2  0  3
  subtype3 44  2  0  3
  subtype4 38  1  1  3
  subtype5 15  1  0  0
D4V14, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 46 25
  subtype2 54 17
  subtype3 48 24
subtype1 subtype2 subtype3 
      71       71       72 
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-86-7955 
        8.02        10.55         0.36         0.89         1.12         0.46 
TCGA-91-6831 TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 TCGA-95-7043 TCGA-95-7567 
        1.28         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 
  12.130   13.740    9.765 
[1] "0.0 - 163.1 (12.1)" "0.1 - 224.0 (13.7)" "0.0 - 83.8 (9.8)"  
  [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" "subtype3" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "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" "subtype3" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "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" "subtype3" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 53 33
  subtype2 40 35
  subtype3 38 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   53   33
  subtype2   40   35
  subtype3   38   38
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       53       40       38
  MALE         33       35       38
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                                                 59
          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 48  8  4
  subtype2 20 41  2  7
  subtype3 16 49  7  2
D5V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 44 22    15
  subtype2 44 13    12
  subtype3 45 11    17
D5V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 59  5 19
  subtype2 46  4 19
  subtype3 55  3 15
D5V8, multiclass
          vv
clus        I II III IV
  subtype1 42 20  16  5
  subtype2 34 16  14  5
  subtype3 40 12  19  3
D5V9, multiclass
D5V10, binary
          cls
clus        0  1
  subtype1  6 80
  subtype2  4 71
  subtype3  5 71
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   80
  subtype2    4   71
  subtype3    5   71
     clus
vv    subtype1 subtype2 subtype3
  NO         6        4        5
  YES       80       71       71
D5V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          26
  subtype2                                          25
  subtype3                                          31
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     24             11
  subtype2                                     23             15
  subtype3                                     10             25
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  19
  subtype2                   5
  subtype3                   5
D5V12, multiclass
D5V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 43  2  3  5
  subtype2 43  3  0  1
  subtype3 41  1  0  6
D5V14, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 14  4
  subtype2 47 30
  subtype3 44 19
  subtype4 43 13
subtype1 subtype2 subtype3 subtype4 
      18       77       63       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-86-7955 
        8.02        10.55         0.36         0.89         1.12         0.46 
TCGA-91-6831 TCGA-91-6836 TCGA-95-7043 
        1.28         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    8.810   14.470 
[1] "0.0 - 63.7 (7.1)"   "0.7 - 163.1 (13.2)" "0.0 - 83.8 (8.8)"  
[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" "subtype3" "subtype2" "subtype2" "subtype1"
[193] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[199] "subtype1" "subtype4" "subtype2" "subtype3" "subtype2" "subtype4"
[205] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
[211] "subtype1" "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" "subtype3" "subtype2" "subtype2" "subtype1"
[193] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[199] "subtype1" "subtype4" "subtype2" "subtype3" "subtype2" "subtype4"
[205] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
[211] "subtype1" "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" "subtype3" "subtype2" "subtype2" "subtype1"
[193] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype4"
[199] "subtype1" "subtype4" "subtype2" "subtype3" "subtype2" "subtype4"
[205] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
[211] "subtype1" "subtype4" "subtype1" "subtype1"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 15  8
  subtype2 56 34
  subtype3 33 33
  subtype4 27 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15    8
  subtype2   56   34
  subtype3   33   33
  subtype4   27   31
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       15       56       33       27
  MALE          8       34       33       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                                                 49
  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 10  2  3
  subtype2 23 56  3  5
  subtype3 16 39  7  2
  subtype4 14 33  5  3
D6V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 14  4     4
  subtype2 46 21    16
  subtype3 38  9    16
  subtype4 35 12     8
D6V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 13  1  8
  subtype2 61  6 19
  subtype3 46  2 15
  subtype4 40  3 11
D6V8, multiclass
          vv
clus        I II III IV
  subtype1 11  5   5  1
  subtype2 46 19  15  6
  subtype3 31 12  18  3
  subtype4 28 12  11  3
D6V9, multiclass
D6V10, binary
          cls
clus        0  1
  subtype1  0 23
  subtype2  6 84
  subtype3  6 60
  subtype4  3 55
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   23
  subtype2    6   84
  subtype3    6   60
  subtype4    3   55
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        6        6        3
  YES       23       84       60       55
D6V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          13
  subtype2                                          26
  subtype3                                          26
  subtype4                                          17
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                      4              0
  subtype2                                     23             15
  subtype3                                      8             25
  subtype4                                     22             11
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   4
  subtype2                  18
  subtype3                   3
  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  5
  subtype4 35  2  0  3
D6V14, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 44 16
  subtype2 36 10
  subtype3 28 18
  subtype4 20 13
  subtype5 19  3
  subtype6 36  4
  subtype7 20 12
  subtype8 18  2
  subtype9 13  3
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
      60       46       46       33       22       40       32       20 
subtype9 
      16 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
      16       10       18       13        3        4       12        2 
subtype9 
       3 
$subtype1
TCGA-05-4250 TCGA-05-4398 TCGA-05-4405 TCGA-05-4427 TCGA-05-4430 TCGA-05-5423 
        3.98        47.05        20.05        26.01        25.02         4.96 
TCGA-35-4122 TCGA-35-4123 TCGA-38-4632 TCGA-44-2656 TCGA-44-2662 TCGA-44-3396 
        7.36         5.95        44.61        19.10        15.78        10.22 
TCGA-44-3918 TCGA-44-4112 TCGA-44-6777 TCGA-44-7662 TCGA-44-7672 TCGA-44-8117 
        6.44         4.60        32.45         1.64        13.74         8.52 
TCGA-49-4488 TCGA-49-4494 TCGA-49-4505 TCGA-49-6745 TCGA-49-6761 TCGA-50-5045 
       28.57        35.54        14.07         4.93         0.03        71.47 
TCGA-50-5933 TCGA-50-5941 TCGA-50-6593 TCGA-50-6594 TCGA-55-6712 TCGA-55-6979 
       77.88         9.37        11.05        12.16         0.79         7.76 
TCGA-55-6981 TCGA-55-6982 TCGA-55-7281 TCGA-55-7283 TCGA-55-7576 TCGA-55-7727 
       45.34        32.71         0.59         1.12         1.32         1.02 
TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 TCGA-55-8301 TCGA-55-8510 TCGA-64-1676 
        0.62         0.53         0.69         1.41         7.46        56.81 
TCGA-64-5778 TCGA-69-7760 TCGA-69-7765 TCGA-69-7974 TCGA-69-7978 TCGA-69-7980 
       30.44         5.06         4.24         6.05         2.30        12.56 
TCGA-71-6725 TCGA-73-4658 TCGA-73-4662 TCGA-73-4668 TCGA-73-4676 TCGA-78-7145 
        2.01        52.57        29.95        15.35         4.01        27.16 
TCGA-78-7535 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-99-8028 
       31.20         1.12         5.36         8.65         5.95        15.06 

$subtype2
TCGA-05-4249 TCGA-05-4402 TCGA-38-4628 TCGA-38-6178 TCGA-44-2657 TCGA-44-2659 
       38.07         8.02        49.02         5.19        13.15        17.39 
TCGA-44-3919 TCGA-44-5645 TCGA-44-6775 TCGA-49-4490 TCGA-49-4501 TCGA-49-4512 
        6.21         6.84         2.70        12.66        46.72        29.75 
TCGA-49-6744 TCGA-50-5935 TCGA-50-5944 TCGA-50-6597 TCGA-55-6543 TCGA-55-6980 
       12.99        21.47        12.26        33.37         0.07         2.20 
TCGA-55-8087 TCGA-55-8097 TCGA-55-8514 TCGA-64-1681 TCGA-67-3770 TCGA-67-3772 
        0.69         0.49         6.97        44.38         0.99         0.59 
TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-78-7143 TCGA-78-7147 TCGA-78-7158 
        0.89         0.69        13.87       163.10        19.27         5.88 
TCGA-78-7163 TCGA-78-7539 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 
      223.96        10.75         0.33         0.79         1.41         0.69 
TCGA-86-8280 TCGA-86-8668 TCGA-93-7347 TCGA-93-7348 TCGA-95-7948 TCGA-97-7546 
        0.53         1.45         9.76         4.18         4.34        31.66 
TCGA-97-7547 TCGA-97-8171 TCGA-97-8177 TCGA-J2-8192 
       47.18         3.48         4.80         5.03 

$subtype3
TCGA-05-4382 TCGA-05-4397 TCGA-05-4415 TCGA-05-4424 TCGA-35-5375 TCGA-38-4625 
       19.92        24.03         2.96        30.02         8.68        47.61 
TCGA-38-4630 TCGA-38-4631 TCGA-44-5643 TCGA-44-6778 TCGA-44-7660 TCGA-44-7670 
       35.28        11.64         3.48        36.49         5.33        17.46 
TCGA-49-4487 TCGA-49-6743 TCGA-50-5066 TCGA-50-5072 TCGA-50-5931 TCGA-50-5946 
       28.11        12.13         9.76         8.05         8.78        11.47 
TCGA-50-6590 TCGA-50-6591 TCGA-50-6592 TCGA-53-7624 TCGA-55-1592 TCGA-55-1596 
       42.31         3.88        25.51        35.11        23.05        45.17 
TCGA-55-5899 TCGA-55-6968 TCGA-55-6975 TCGA-55-8620 TCGA-62-8399 TCGA-64-5775 
        2.86        42.48         3.88         2.14        68.81         0.10 
TCGA-67-3771 TCGA-69-8255 TCGA-78-7146 TCGA-78-7150 TCGA-78-7155 TCGA-78-7220 
        1.97         4.21         5.65        21.86        38.50        26.53 
TCGA-86-7711 TCGA-86-7955 TCGA-86-8073 TCGA-86-8585 TCGA-91-6829 TCGA-91-6830 
        0.89         0.46         0.43         1.12        41.33         0.03 
TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 TCGA-95-7043 
        0.36        26.93         4.18         0.07 

$subtype4
TCGA-05-4384 TCGA-05-4396 TCGA-35-3615 TCGA-44-2655 TCGA-44-6776 TCGA-44-7671 
       14.01         9.96         0.46        18.87        63.72        17.59 
TCGA-49-4486 TCGA-49-4510 TCGA-50-5932 TCGA-55-6970 TCGA-55-6972 TCGA-67-3774 
       76.21        29.46        35.87        15.25        48.49         0.59 
TCGA-69-7763 TCGA-69-7764 TCGA-69-8253 TCGA-73-4675 TCGA-73-4677 TCGA-73-7498 
       22.68        13.61         3.25         1.32         1.25        20.42 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7156 TCGA-78-7160 TCGA-78-7162 
       20.58        35.93        39.48        32.09        22.29       104.15 
TCGA-78-7166 TCGA-78-7167 TCGA-78-7537 TCGA-78-7633 TCGA-91-6849 TCGA-97-8174 
        8.48        88.11        53.33        32.68         0.92         5.36 
TCGA-97-8179 TCGA-99-8033 TCGA-J2-8194 
        0.49         5.56         3.72 

$subtype5
TCGA-05-4433 TCGA-05-5420 TCGA-05-5425 TCGA-05-5429 TCGA-05-5715 TCGA-44-6146 
       24.00         1.02         2.96         0.99         2.04         9.93 
TCGA-49-4514 TCGA-49-6742 TCGA-50-6673 TCGA-55-6984 TCGA-55-7728 TCGA-55-8092 
       43.20        15.02         0.72        24.99         0.79         0.85 
TCGA-55-8094 TCGA-55-8619 TCGA-69-7761 TCGA-69-8254 TCGA-78-7154 TCGA-78-7540 
        0.13         1.61         6.12         2.50        19.50        28.96 
TCGA-91-7771 TCGA-93-8067 TCGA-97-7552 TCGA-97-7941 
        1.02         6.08        48.53         0.72 

$subtype6
TCGA-05-4390 TCGA-05-4417 TCGA-05-4420 TCGA-05-4432 TCGA-44-5644 TCGA-44-6774 
       37.02        14.93        29.95        25.02        16.37         5.42 
TCGA-44-7667 TCGA-44-7669 TCGA-44-8119 TCGA-50-5051 TCGA-50-7109 TCGA-53-7813 
       18.31        18.87         3.22        14.96         8.38        13.74 
TCGA-55-1594 TCGA-55-1595 TCGA-55-6642 TCGA-55-6969 TCGA-55-6971 TCGA-55-6983 
       38.73        48.62        32.61        40.70         0.92        60.03 
TCGA-55-7815 TCGA-55-7910 TCGA-55-8615 TCGA-64-1677 TCGA-64-1678 TCGA-64-5774 
        1.78         6.48         0.49        20.65        39.09        83.84 
TCGA-64-5779 TCGA-69-7973 TCGA-73-4659 TCGA-78-7153 TCGA-78-7159 TCGA-78-7161 
       16.67         7.56        23.38        24.99        40.11         7.04 
TCGA-78-7536 TCGA-86-7701 TCGA-86-7713 TCGA-86-7953 TCGA-86-8054 TCGA-86-8669 
        8.02         0.36         0.23         1.12         0.62         1.08 
TCGA-91-6828 TCGA-91-6831 TCGA-97-8172 TCGA-99-8032 
        1.22         1.28         5.95         1.45 

$subtype7
TCGA-05-4418 TCGA-05-4426 TCGA-38-4627 TCGA-38-4629 TCGA-44-2665 TCGA-44-2668 
        8.98        26.01        37.71        28.37        13.15         8.09 
TCGA-44-3398 TCGA-44-6145 TCGA-44-6779 TCGA-44-7661 TCGA-49-4506 TCGA-49-4507 
        8.32         3.35        16.41         5.03        32.84         8.81 
TCGA-50-5044 TCGA-50-5936 TCGA-50-5939 TCGA-50-6595 TCGA-55-6978 TCGA-55-6987 
       20.48         8.45        15.12         6.21         5.46        38.47 
TCGA-55-7726 TCGA-55-8089 TCGA-55-8090 TCGA-55-8299 TCGA-64-1679 TCGA-64-5781 
        1.02         3.02         0.20         7.07        55.40        39.52 
TCGA-64-5815 TCGA-73-4666 TCGA-73-4670 TCGA-78-7542 TCGA-83-5908 TCGA-86-8278 
        7.33        20.28         0.46        10.55        13.81         0.76 
TCGA-86-8672 TCGA-95-7944 
        0.49         0.69 

$subtype8
TCGA-05-4434 TCGA-44-6147 TCGA-44-6148 TCGA-44-7659 TCGA-50-5049 TCGA-50-5055 
       15.02         7.76         3.12         9.80        48.82        25.81 
TCGA-50-5068 TCGA-55-6985 TCGA-55-7573 TCGA-55-8512 TCGA-55-8513 TCGA-55-8616 
       49.28        40.54         0.13         0.10         4.80         1.58 
TCGA-55-8621 TCGA-64-1680 TCGA-69-7979 TCGA-73-7499 TCGA-86-8076 TCGA-91-6835 
        3.45        37.02         2.93        17.06         0.85         1.15 
TCGA-95-7947 TCGA-99-8025 
        1.32        14.04 

$subtype9
TCGA-38-4626 TCGA-38-7271 TCGA-44-2661 TCGA-44-2666 TCGA-50-5942 TCGA-53-7626 
       85.32        26.30         3.39         3.19         4.44        31.89 
TCGA-55-6986 TCGA-55-7227 TCGA-55-7574 TCGA-55-7725 TCGA-55-7914 TCGA-67-3773 
       71.05         2.01         3.12         1.28         0.10         2.04 
TCGA-86-8671 TCGA-97-7553 TCGA-97-7938 TCGA-99-7458 
        0.56        43.76         0.59         8.22 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
    0.03     0.07     0.03     0.46     0.13     0.23     0.20     0.10 
subtype9 
    0.10 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
   77.88   223.96    68.81   104.15    48.53    83.84    55.40    49.28 
subtype9 
   85.32 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
   8.585    6.525   10.615   18.870    2.730   14.335    8.630    6.280 
subtype9 
   3.290 
[1] "0.0 - 77.9 (8.6)"   "0.1 - 224.0 (6.5)"  "0.0 - 68.8 (10.6)" 
[4] "0.5 - 104.2 (18.9)" "0.1 - 48.5 (2.7)"   "0.2 - 83.8 (14.3)" 
[7] "0.2 - 55.4 (8.6)"   "0.1 - 49.3 (6.3)"   "0.1 - 85.3 (3.3)"  
  [1] "subtype2" "subtype1" "subtype3" "subtype4" "subtype6" "subtype4"
  [7] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype6"
 [13] "subtype7" "subtype6" "subtype3" "subtype7" "subtype1" "subtype1"
 [19] "subtype6" "subtype5" "subtype8" "subtype5" "subtype1" "subtype5"
 [25] "subtype5" "subtype5" "subtype4" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype9" "subtype7" "subtype2" "subtype7" "subtype3"
 [37] "subtype3" "subtype1" "subtype2" "subtype9" "subtype4" "subtype1"
 [43] "subtype2" "subtype2" "subtype9" "subtype1" "subtype7" "subtype9"
 [49] "subtype7" "subtype1" "subtype7" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype6" "subtype2" "subtype7" "subtype5" "subtype8"
 [61] "subtype8" "subtype6" "subtype2" "subtype4" "subtype1" "subtype3"
 [67] "subtype7" "subtype8" "subtype3" "subtype7" "subtype1" "subtype6"
 [73] "subtype6" "subtype3" "subtype4" "subtype1" "subtype1" "subtype6"
 [79] "subtype4" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype1" "subtype7" "subtype7" "subtype4" "subtype2" "subtype5"
 [91] "subtype5" "subtype3" "subtype2" "subtype1" "subtype1" "subtype7"
 [97] "subtype1" "subtype8" "subtype6" "subtype8" "subtype3" "subtype8"
[103] "subtype3" "subtype3" "subtype4" "subtype1" "subtype2" "subtype7"
[109] "subtype7" "subtype1" "subtype9" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype1" "subtype7" "subtype2"
[121] "subtype5" "subtype6" "subtype3" "subtype9" "subtype6" "subtype3"
[127] "subtype6" "subtype6" "subtype3" "subtype3" "subtype2" "subtype6"
[133] "subtype1" "subtype3" "subtype6" "subtype4" "subtype6" "subtype4"
[139] "subtype3" "subtype7" "subtype1" "subtype2" "subtype1" "subtype1"
[145] "subtype6" "subtype5" "subtype8" "subtype9" "subtype7" "subtype9"
[151] "subtype1" "subtype1" "subtype8" "subtype9" "subtype1" "subtype9"
[157] "subtype7" "subtype1" "subtype5" "subtype6" "subtype1" "subtype1"
[163] "subtype6" "subtype1" "subtype9" "subtype2" "subtype7" "subtype7"
[169] "subtype5" "subtype5" "subtype2" "subtype7" "subtype1" "subtype1"
[175] "subtype8" "subtype8" "subtype2" "subtype6" "subtype8" "subtype5"
[181] "subtype3" "subtype8" "subtype3" "subtype1" "subtype6" "subtype6"
[187] "subtype7" "subtype8" "subtype2" "subtype6" "subtype3" "subtype1"
[193] "subtype6" "subtype7" "subtype7" "subtype2" "subtype3" "subtype2"
[199] "subtype9" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype5" "subtype4" "subtype4" "subtype1" "subtype6" "subtype1"
[211] "subtype1" "subtype8" "subtype1" "subtype4" "subtype5" "subtype3"
[217] "subtype1" "subtype1" "subtype6" "subtype1" "subtype7" "subtype1"
[223] "subtype7" "subtype4" "subtype1" "subtype4" "subtype4" "subtype8"
[229] "subtype2" "subtype1" "subtype3" "subtype2" "subtype4" "subtype4"
[235] "subtype3" "subtype4" "subtype6" "subtype5" "subtype3" "subtype4"
[241] "subtype2" "subtype6" "subtype4" "subtype6" "subtype4" "subtype2"
[247] "subtype4" "subtype4" "subtype3" "subtype1" "subtype6" "subtype4"
[253] "subtype2" "subtype5" "subtype7" "subtype4" "subtype7" "subtype6"
[259] "subtype3" "subtype6" "subtype6" "subtype3" "subtype6" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype8" "subtype7" "subtype2"
[271] "subtype2" "subtype3" "subtype2" "subtype6" "subtype9" "subtype7"
[277] "subtype6" "subtype3" "subtype3" "subtype6" "subtype8" "subtype3"
[283] "subtype3" "subtype3" "subtype4" "subtype5" "subtype2" "subtype2"
[289] "subtype5" "subtype1" "subtype3" "subtype1" "subtype7" "subtype8"
[295] "subtype2" "subtype2" "subtype2" "subtype5" "subtype9" "subtype1"
[301] "subtype1" "subtype9" "subtype5" "subtype2" "subtype6" "subtype4"
[307] "subtype2" "subtype4" "subtype9" "subtype8" "subtype1" "subtype6"
[313] "subtype4" "subtype2" "subtype4"
  [1] "subtype2" "subtype1" "subtype3" "subtype4" "subtype6" "subtype4"
  [7] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype6"
 [13] "subtype7" "subtype6" "subtype3" "subtype7" "subtype1" "subtype1"
 [19] "subtype6" "subtype5" "subtype8" "subtype5" "subtype1" "subtype5"
 [25] "subtype5" "subtype5" "subtype4" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype9" "subtype7" "subtype2" "subtype7" "subtype3"
 [37] "subtype3" "subtype1" "subtype2" "subtype9" "subtype4" "subtype1"
 [43] "subtype2" "subtype2" "subtype9" "subtype1" "subtype7" "subtype9"
 [49] "subtype7" "subtype1" "subtype7" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype6" "subtype2" "subtype7" "subtype5" "subtype8"
 [61] "subtype8" "subtype6" "subtype2" "subtype4" "subtype1" "subtype3"
 [67] "subtype7" "subtype8" "subtype3" "subtype7" "subtype1" "subtype6"
 [73] "subtype6" "subtype3" "subtype4" "subtype1" "subtype1" "subtype6"
 [79] "subtype4" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype1" "subtype7" "subtype7" "subtype4" "subtype2" "subtype5"
 [91] "subtype5" "subtype3" "subtype2" "subtype1" "subtype1" "subtype7"
 [97] "subtype1" "subtype8" "subtype6" "subtype8" "subtype3" "subtype8"
[103] "subtype3" "subtype3" "subtype4" "subtype1" "subtype2" "subtype7"
[109] "subtype7" "subtype1" "subtype9" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype1" "subtype7" "subtype2"
[121] "subtype5" "subtype6" "subtype3" "subtype9" "subtype6" "subtype3"
[127] "subtype6" "subtype6" "subtype3" "subtype3" "subtype2" "subtype6"
[133] "subtype1" "subtype3" "subtype6" "subtype4" "subtype6" "subtype4"
[139] "subtype3" "subtype7" "subtype1" "subtype2" "subtype1" "subtype1"
[145] "subtype6" "subtype5" "subtype8" "subtype9" "subtype7" "subtype9"
[151] "subtype1" "subtype1" "subtype8" "subtype9" "subtype1" "subtype9"
[157] "subtype7" "subtype1" "subtype5" "subtype6" "subtype1" "subtype1"
[163] "subtype6" "subtype1" "subtype9" "subtype2" "subtype7" "subtype7"
[169] "subtype5" "subtype5" "subtype2" "subtype7" "subtype1" "subtype1"
[175] "subtype8" "subtype8" "subtype2" "subtype6" "subtype8" "subtype5"
[181] "subtype3" "subtype8" "subtype3" "subtype1" "subtype6" "subtype6"
[187] "subtype7" "subtype8" "subtype2" "subtype6" "subtype3" "subtype1"
[193] "subtype6" "subtype7" "subtype7" "subtype2" "subtype3" "subtype2"
[199] "subtype9" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype5" "subtype4" "subtype4" "subtype1" "subtype6" "subtype1"
[211] "subtype1" "subtype8" "subtype1" "subtype4" "subtype5" "subtype3"
[217] "subtype1" "subtype1" "subtype6" "subtype1" "subtype7" "subtype1"
[223] "subtype7" "subtype4" "subtype1" "subtype4" "subtype4" "subtype8"
[229] "subtype2" "subtype1" "subtype3" "subtype2" "subtype4" "subtype4"
[235] "subtype3" "subtype4" "subtype6" "subtype5" "subtype3" "subtype4"
[241] "subtype2" "subtype6" "subtype4" "subtype6" "subtype4" "subtype2"
[247] "subtype4" "subtype4" "subtype3" "subtype1" "subtype6" "subtype4"
[253] "subtype2" "subtype5" "subtype7" "subtype4" "subtype7" "subtype6"
[259] "subtype3" "subtype6" "subtype6" "subtype3" "subtype6" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype8" "subtype7" "subtype2"
[271] "subtype2" "subtype3" "subtype2" "subtype6" "subtype9" "subtype7"
[277] "subtype6" "subtype3" "subtype3" "subtype6" "subtype8" "subtype3"
[283] "subtype3" "subtype3" "subtype4" "subtype5" "subtype2" "subtype2"
[289] "subtype5" "subtype1" "subtype3" "subtype1" "subtype7" "subtype8"
[295] "subtype2" "subtype2" "subtype2" "subtype5" "subtype9" "subtype1"
[301] "subtype1" "subtype9" "subtype5" "subtype2" "subtype6" "subtype4"
[307] "subtype2" "subtype4" "subtype9" "subtype8" "subtype1" "subtype6"
[313] "subtype4" "subtype2" "subtype4"
  [1] "subtype2" "subtype1" "subtype3" "subtype4" "subtype6" "subtype4"
  [7] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype6"
 [13] "subtype7" "subtype6" "subtype3" "subtype7" "subtype1" "subtype1"
 [19] "subtype6" "subtype5" "subtype8" "subtype5" "subtype1" "subtype5"
 [25] "subtype5" "subtype5" "subtype4" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype9" "subtype7" "subtype2" "subtype7" "subtype3"
 [37] "subtype3" "subtype1" "subtype2" "subtype9" "subtype4" "subtype1"
 [43] "subtype2" "subtype2" "subtype9" "subtype1" "subtype7" "subtype9"
 [49] "subtype7" "subtype1" "subtype7" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype6" "subtype2" "subtype7" "subtype5" "subtype8"
 [61] "subtype8" "subtype6" "subtype2" "subtype4" "subtype1" "subtype3"
 [67] "subtype7" "subtype8" "subtype3" "subtype7" "subtype1" "subtype6"
 [73] "subtype6" "subtype3" "subtype4" "subtype1" "subtype1" "subtype6"
 [79] "subtype4" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype1" "subtype7" "subtype7" "subtype4" "subtype2" "subtype5"
 [91] "subtype5" "subtype3" "subtype2" "subtype1" "subtype1" "subtype7"
 [97] "subtype1" "subtype8" "subtype6" "subtype8" "subtype3" "subtype8"
[103] "subtype3" "subtype3" "subtype4" "subtype1" "subtype2" "subtype7"
[109] "subtype7" "subtype1" "subtype9" "subtype2" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype1" "subtype7" "subtype2"
[121] "subtype5" "subtype6" "subtype3" "subtype9" "subtype6" "subtype3"
[127] "subtype6" "subtype6" "subtype3" "subtype3" "subtype2" "subtype6"
[133] "subtype1" "subtype3" "subtype6" "subtype4" "subtype6" "subtype4"
[139] "subtype3" "subtype7" "subtype1" "subtype2" "subtype1" "subtype1"
[145] "subtype6" "subtype5" "subtype8" "subtype9" "subtype7" "subtype9"
[151] "subtype1" "subtype1" "subtype8" "subtype9" "subtype1" "subtype9"
[157] "subtype7" "subtype1" "subtype5" "subtype6" "subtype1" "subtype1"
[163] "subtype6" "subtype1" "subtype9" "subtype2" "subtype7" "subtype7"
[169] "subtype5" "subtype5" "subtype2" "subtype7" "subtype1" "subtype1"
[175] "subtype8" "subtype8" "subtype2" "subtype6" "subtype8" "subtype5"
[181] "subtype3" "subtype8" "subtype3" "subtype1" "subtype6" "subtype6"
[187] "subtype7" "subtype8" "subtype2" "subtype6" "subtype3" "subtype1"
[193] "subtype6" "subtype7" "subtype7" "subtype2" "subtype3" "subtype2"
[199] "subtype9" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype5" "subtype4" "subtype4" "subtype1" "subtype6" "subtype1"
[211] "subtype1" "subtype8" "subtype1" "subtype4" "subtype5" "subtype3"
[217] "subtype1" "subtype1" "subtype6" "subtype1" "subtype7" "subtype1"
[223] "subtype7" "subtype4" "subtype1" "subtype4" "subtype4" "subtype8"
[229] "subtype2" "subtype1" "subtype3" "subtype2" "subtype4" "subtype4"
[235] "subtype3" "subtype4" "subtype6" "subtype5" "subtype3" "subtype4"
[241] "subtype2" "subtype6" "subtype4" "subtype6" "subtype4" "subtype2"
[247] "subtype4" "subtype4" "subtype3" "subtype1" "subtype6" "subtype4"
[253] "subtype2" "subtype5" "subtype7" "subtype4" "subtype7" "subtype6"
[259] "subtype3" "subtype6" "subtype6" "subtype3" "subtype6" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype8" "subtype7" "subtype2"
[271] "subtype2" "subtype3" "subtype2" "subtype6" "subtype9" "subtype7"
[277] "subtype6" "subtype3" "subtype3" "subtype6" "subtype8" "subtype3"
[283] "subtype3" "subtype3" "subtype4" "subtype5" "subtype2" "subtype2"
[289] "subtype5" "subtype1" "subtype3" "subtype1" "subtype7" "subtype8"
[295] "subtype2" "subtype2" "subtype2" "subtype5" "subtype9" "subtype1"
[301] "subtype1" "subtype9" "subtype5" "subtype2" "subtype6" "subtype4"
[307] "subtype2" "subtype4" "subtype9" "subtype8" "subtype1" "subtype6"
[313] "subtype4" "subtype2" "subtype4"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 37 31
  subtype2 43  7
  subtype3 20 30
  subtype4 10 29
  subtype5  9 17
  subtype6 21 22
  subtype7 20 16
  subtype8 13  8
  subtype9 18  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37   31
  subtype2   43    7
  subtype3   20   30
  subtype4   10   29
  subtype5    9   17
  subtype6   21   22
  subtype7   20   16
  subtype8   13    8
  subtype9   18    3
D7V4, continuous
[1] "Remove cluster labels:" "subtype4"               "subtype8"              
clus
subtype1 subtype2 subtype3 subtype4 subtype6 subtype7 subtype8 subtype9 
       9        4        3        1        5        3        1        3 
 [1] "subtype1" "subtype1" "subtype3" "subtype1" "subtype9" "subtype6"
 [7] "subtype9" "subtype6" "subtype2" "subtype1" "subtype1" "subtype1"
[13] "subtype6" "subtype1" "subtype7" "subtype1" "subtype1" "subtype7"
[19] "subtype7" "subtype6" "subtype3" "subtype6" "subtype2" "subtype2"
[25] "subtype3" "subtype2" "subtype9"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          1                                14
  subtype2                          2                                 9
  subtype3                          0                                10
  subtype4                          1                                16
  subtype5                          2                                 6
  subtype6                          3                                 8
  subtype7                          0                                 6
  subtype8                          1                                 5
  subtype9                          0                                 1
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 46
  subtype2                                                 30
  subtype3                                                 32
  subtype4                                                 15
  subtype5                                                 11
  subtype6                                                 28
  subtype7                                                 27
  subtype8                                                 11
  subtype9                                                 14
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          2
  subtype3                                          0
  subtype4                                          0
  subtype5                                          2
  subtype6                                          0
  subtype7                                          0
  subtype8                                          0
  subtype9                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             2
  subtype2                                             4
  subtype3                                             2
  subtype4                                             2
  subtype5                                             0
  subtype6                                             2
  subtype7                                             0
  subtype8                                             1
  subtype9                                             4
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  2
  subtype2                              0                                  0
  subtype3                              1                                  0
  subtype4                              0                                  0
  subtype5                              0                                  0
  subtype6                              1                                  0
  subtype7                              0                                  0
  subtype8                              0                                  0
  subtype9                              0                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             3
  subtype2                            0                             3
  subtype3                            0                             2
  subtype4                            0                             5
  subtype5                            1                             1
  subtype6                            0                             0
  subtype7                            0                             1
  subtype8                            1                             1
  subtype9                            0                             1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             3
  subtype4                                             0
  subtype5                                             0
  subtype6                                             0
  subtype7                                             0
  subtype8                                             0
  subtype9                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA MUCINOUS (COLLOID) CARCINOMA
  subtype1                                 0                            0
  subtype2                                 0                            0
  subtype3                                 0                            0
  subtype4                                 0                            0
  subtype5                                 2                            1
  subtype6                                 1                            0
  subtype7                                 1                            1
  subtype8                                 0                            1
  subtype9                                 0                            0
D7V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 17 33  7  4
  subtype2 12 21  1  1
  subtype3 12 29  1  2
  subtype4  6 19  1  4
  subtype5  4 13  4  0
  subtype6  7 25  2  1
  subtype7  7 16  4  2
  subtype8  6  4  1  1
  subtype9  8  8  2  1
D7V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 27 18    15
  subtype2 23  5     5
  subtype3 27  8     9
  subtype4 19  7     4
  subtype5 15  3     3
  subtype6 24  3     7
  subtype7 16  7     6
  subtype8  7  3     1
  subtype9 13  5     1
D7V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 41  3 15
  subtype2 23  2  8
  subtype3 28  3 12
  subtype4 24  3  3
  subtype5 15  0  6
  subtype6 25  1  8
  subtype7 25  2  2
  subtype8  5  2  5
  subtype9 14  0  5
D7V8, multiclass
          vv
clus        I II III IV
  subtype1 24 16  14  4
  subtype2 22  6   5  2
  subtype3 24  8  10  2
  subtype4 17  4   6  3
  subtype5 13  5   3  0
  subtype6 19  7   8  1
  subtype7 12  7   8  2
  subtype8  7  3   0  2
  subtype9 10  5   3  0
D7V9, multiclass
D7V10, binary
          cls
clus        0  1
  subtype1  6 62
  subtype2  2 48
  subtype3  2 48
  subtype4  1 38
  subtype5  0 26
  subtype6  2 41
  subtype7  2 34
  subtype8  2 19
  subtype9  2 19
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   62
  subtype2    2   48
  subtype3    2   48
  subtype4    1   38
  subtype5    0   26
  subtype6    2   41
  subtype7    2   34
  subtype8    2   19
  subtype9    2   19
D7V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          24
  subtype2                                           8
  subtype3                                          21
  subtype4                                           8
  subtype5                                           4
  subtype6                                          15
  subtype7                                          13
  subtype8                                           1
  subtype9                                           6
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     18             14
  subtype2                                     12              2
  subtype3                                      4             15
  subtype4                                     14              6
  subtype5                                     10              1
  subtype6                                      4             13
  subtype7                                      6              4
  subtype8                                      5              2
  subtype9                                      5              4
          vv
clus       LIFELONG NON-SMOKER
  subtype1                   3
  subtype2                  12
  subtype3                   3
  subtype4                   1
  subtype5                   5
  subtype6                   3
  subtype7                   4
  subtype8                   1
  subtype9                   4
D7V12, multiclass
D7V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 35  1  1  3
  subtype2 29  3  1  2
  subtype3 26  2  0  1
  subtype4 23  0  0  2
  subtype5 15  0  0  2
  subtype6 24  1  0  1
  subtype7 25  1  1  0
  subtype8 11  0  1  1
  subtype9 15  1  0  0
D7V14, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1 101  28
  subtype2  59  25
  subtype3  74  28
subtype1 subtype2 subtype3 
     129       84      102 
subtype1 subtype2 subtype3 
      28       25       28 
$subtype1
TCGA-05-4249 TCGA-05-4384 TCGA-05-4396 TCGA-05-4430 TCGA-05-4433 TCGA-05-4434 
       38.07        14.01         9.96        25.02        24.00        15.02 
TCGA-05-5423 TCGA-05-5429 TCGA-05-5715 TCGA-35-3615 TCGA-38-4626 TCGA-38-4627 
        4.96         0.99         2.04         0.46        85.32        37.71 
TCGA-38-7271 TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 
       26.30        18.87        13.15        17.39         3.39         3.19 
TCGA-44-3919 TCGA-44-5645 TCGA-44-6146 TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 
        6.21         6.84         9.93         7.76         3.12        63.72 
TCGA-44-7659 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-49-4486 TCGA-49-4501 
        9.80        17.46        17.59        13.74        76.21        46.72 
TCGA-49-4510 TCGA-49-4512 TCGA-49-6744 TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 
       29.46        29.75        12.99        71.47        48.82        25.81 
TCGA-50-5068 TCGA-50-5932 TCGA-50-5935 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 
       49.28        35.87        21.47         4.44        12.26        11.05 
TCGA-50-6597 TCGA-50-6673 TCGA-53-7626 TCGA-55-6543 TCGA-55-6972 TCGA-55-6982 
       33.37         0.72        31.89         0.07        48.49        32.71 
TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 
       60.03        24.99        40.54        71.05         2.01         0.59 
TCGA-55-7283 TCGA-55-7573 TCGA-55-7725 TCGA-55-7728 TCGA-55-7914 TCGA-55-8087 
        1.12         0.13         1.28         0.79         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-67-3770 TCGA-67-3772 TCGA-67-3773 
        3.45        37.02        44.38         0.99         0.59         2.04 
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-69-7974 TCGA-69-7979 TCGA-69-8253 TCGA-69-8254 TCGA-73-4662 
       13.61         6.05         2.93         3.25         2.50        29.95 
TCGA-73-4675 TCGA-73-4677 TCGA-73-7498 TCGA-78-7143 TCGA-78-7147 TCGA-78-7149 
        1.32         1.25        20.42       163.10        19.27        35.93 
TCGA-78-7152 TCGA-78-7153 TCGA-78-7156 TCGA-78-7158 TCGA-78-7162 TCGA-78-7163 
       39.48        24.99        32.09         5.88       104.15       223.96 
TCGA-78-7167 TCGA-78-7537 TCGA-78-7539 TCGA-78-7540 TCGA-78-7633 TCGA-86-7953 
       88.11        53.33        10.75        28.96        32.68         1.12 
TCGA-86-8076 TCGA-86-8278 TCGA-86-8280 TCGA-86-8668 TCGA-86-8671 TCGA-91-6835 
        0.85         0.76         0.53         1.45         0.56         1.15 
TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 TCGA-93-7348 TCGA-95-7947 TCGA-95-7948 
        0.92         1.02         9.76         4.18         1.32         4.34 
TCGA-97-7546 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 
       31.66        47.18        48.53        43.76         0.59         0.72 
TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 TCGA-97-8179 TCGA-99-7458 
        3.48         5.95         5.36         4.80         0.49         8.22 
TCGA-99-8025 TCGA-99-8028 TCGA-J2-8194 
       14.04        15.06         3.72 

$subtype2
TCGA-05-4250 TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4426 TCGA-05-4427 
        3.98        47.05         8.02        20.05        26.01        26.01 
TCGA-35-4122 TCGA-35-4123 TCGA-38-4625 TCGA-38-4628 TCGA-38-4629 TCGA-38-4632 
        7.36         5.95        47.61        49.02        28.37        44.61 
TCGA-38-6178 TCGA-44-2656 TCGA-44-2662 TCGA-44-2665 TCGA-44-2668 TCGA-44-3396 
        5.19        19.10        15.78        13.15         8.09        10.22 
TCGA-44-3398 TCGA-44-3918 TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 TCGA-44-7661 
        8.32         6.44         4.60         2.70        32.45         5.03 
TCGA-44-7662 TCGA-44-8117 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4505 
        1.64         8.52        28.57        12.66        35.54        14.07 
TCGA-49-6745 TCGA-49-6761 TCGA-50-5044 TCGA-50-5066 TCGA-50-5933 TCGA-50-5941 
        4.93         0.03        20.48         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-55-7576 TCGA-55-7727 TCGA-55-7903 
        7.76         2.20        45.34         1.32         1.02         0.62 
TCGA-55-7907 TCGA-55-7911 TCGA-55-8301 TCGA-55-8510 TCGA-55-8514 TCGA-64-1676 
        0.53         0.69         1.41         7.46         6.97        56.81 
TCGA-64-1677 TCGA-64-1679 TCGA-64-5775 TCGA-64-5778 TCGA-64-5815 TCGA-69-7760 
       20.65        55.40         0.10        30.44         7.33         5.06 
TCGA-69-7765 TCGA-69-7978 TCGA-71-6725 TCGA-73-4658 TCGA-73-4666 TCGA-73-4668 
        4.24         2.30         2.01        52.57        20.28        15.35 
TCGA-73-4676 TCGA-73-7499 TCGA-78-7145 TCGA-78-7146 TCGA-78-7535 TCGA-78-7542 
        4.01        17.06        27.16         5.65        31.20        10.55 
TCGA-83-5908 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 TCGA-91-6836 
       13.81         0.33         0.79         1.41         0.69         0.36 
TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-J2-8192 
        4.18         1.12         5.36         8.65         5.95         5.03 

$subtype3
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-49-4487 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 
       28.11        32.84         8.81        43.20        15.02        12.13 
TCGA-50-5051 TCGA-50-5072 TCGA-50-5931 TCGA-50-5936 TCGA-50-5939 TCGA-50-5946 
       14.96         8.05         8.78         8.45        15.12        11.47 
TCGA-50-6591 TCGA-50-6592 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-55-1592 
        3.88        25.51         8.38        35.11        13.74        23.05 
TCGA-55-1594 TCGA-55-1596 TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 TCGA-55-6969 
       38.73        45.17         2.86        32.61        42.48        40.70 
TCGA-55-6970 TCGA-55-6971 TCGA-55-6975 TCGA-55-6987 TCGA-55-7574 TCGA-55-7726 
       15.25         0.92         3.88        38.47         3.12         1.02 
TCGA-55-7815 TCGA-55-7910 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 TCGA-55-8299 
        1.78         6.48         3.02         0.85         0.13         7.07 
TCGA-55-8615 TCGA-55-8620 TCGA-62-8399 TCGA-64-1678 TCGA-64-5774 TCGA-64-5779 
        0.49         2.14        68.81        39.09        83.84        16.67 
TCGA-64-5781 TCGA-67-3771 TCGA-69-7973 TCGA-69-7980 TCGA-69-8255 TCGA-73-4659 
       39.52         1.97         7.56        12.56         4.21        23.38 
TCGA-73-4670 TCGA-78-7148 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 
        0.46        20.58        21.86        19.50        38.50        40.11 
TCGA-78-7160 TCGA-78-7161 TCGA-78-7166 TCGA-78-7220 TCGA-78-7536 TCGA-86-7701 
       22.29         7.04         8.48        26.53         8.02         0.36 
TCGA-86-7711 TCGA-86-7713 TCGA-86-7955 TCGA-86-8054 TCGA-86-8073 TCGA-86-8585 
        0.89         0.23         0.46         0.62         0.43         1.12 
TCGA-86-8669 TCGA-86-8672 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 
        1.08         0.49         1.22        41.33         0.03         1.28 
TCGA-91-6847 TCGA-93-8067 TCGA-95-7043 TCGA-95-7944 TCGA-99-8032 TCGA-99-8033 
       26.93         6.08         0.07         0.69         1.45         5.56 

subtype1 subtype2 subtype3 
    0.07     0.03     0.03 
subtype1 subtype2 subtype3 
  223.96    77.88    83.84 
subtype1 subtype2 subtype3 
   9.800    7.890    8.795 
[1] "0.1 - 224.0 (9.8)" "0.0 - 77.9 (7.9)"  "0.0 - 83.8 (8.8)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [19] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [25] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [79] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[109] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[115] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[121] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[157] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[205] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[217] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[235] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[241] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[247] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[253] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[259] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[271] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[283] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[289] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[301] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[313] "subtype3" "subtype2" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [19] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [25] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [79] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[109] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[115] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[121] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[157] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[205] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[217] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[235] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[241] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[247] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[253] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[259] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[271] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[283] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[289] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[301] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[313] "subtype3" "subtype2" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [19] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [25] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [79] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[109] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[115] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[121] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[157] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[205] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[217] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[235] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[241] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[247] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[253] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[259] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[271] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[283] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[289] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[301] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[313] "subtype3" "subtype2" "subtype1"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 94 52
  subtype2 53 43
  subtype3 44 68
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   94   52
  subtype2   53   43
  subtype3   44   68
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       94       53       44
  MALE         52       43       68
D8V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          7                                36
  subtype2                          1                                16
  subtype3                          2                                23
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 72
  subtype2                                                 68
  subtype3                                                 74
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          4
  subtype2                                          0
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             4
  subtype3                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              1                                  2
  subtype3                              1                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             9
  subtype2                            0                             4
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             3
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA MUCINOUS (COLLOID) CARCINOMA
  subtype1                                 2                            3
  subtype2                                 0                            0
  subtype3                                 2                            0
D8V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 39 59  9  6
  subtype2 19 50  8  6
  subtype3 21 59  6  4
D8V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 75 24    12
  subtype2 43 19    19
  subtype3 53 16    20
D8V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 80  6 24
  subtype2 59  4 19
  subtype3 61  6 21
D8V8, multiclass
          vv
clus        I II III IV
  subtype1 67 23  14  6
  subtype2 36 19  22  5
  subtype3 45 19  21  5
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   7 139
  subtype2   5  91
  subtype3   7 105
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  139
  subtype2    5   91
  subtype3    7  105
     clus
vv    subtype1 subtype2 subtype3
  NO         7        5        7
  YES      139       91      105
D8V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          29
  subtype2                                          30
  subtype3                                          41
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     43             15
  subtype2                                     21             19
  subtype3                                     14             27
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  19
  subtype2                  11
  subtype3                   6
D8V12, multiclass
D8V13, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 80  2  2  6
  subtype2 58  2  2  3
  subtype3 65  5  0  3
D8V14, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 101  26
  subtype2 108  37
  subtype3  54  20
subtype1 subtype2 subtype3 
     127      145       74 
subtype1 subtype2 subtype3 
      26       37       20 
$subtype1
TCGA-05-4250 TCGA-05-4384 TCGA-05-4426 TCGA-05-5429 TCGA-35-3615 TCGA-35-4122 
        3.98        14.01        26.01         0.99         0.46         7.36 
TCGA-38-4626 TCGA-38-7271 TCGA-38-A44F TCGA-44-2655 TCGA-44-2657 TCGA-44-2661 
       85.32        26.30         4.37        18.87        13.15         3.39 
TCGA-44-2666 TCGA-44-3398 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 TCGA-44-6145 
        3.19         8.32         6.21         4.60         6.84         3.35 
TCGA-44-6146 TCGA-44-6148 TCGA-44-6776 TCGA-44-6777 TCGA-44-7659 TCGA-44-7661 
        9.93         3.12        63.72        32.45         9.80         5.03 
TCGA-44-7671 TCGA-44-7672 TCGA-44-A47F TCGA-44-A47G TCGA-49-4486 TCGA-49-4487 
       17.59        13.74         8.09         4.44        76.21        28.11 
TCGA-49-4505 TCGA-49-4510 TCGA-49-6744 TCGA-49-6745 TCGA-50-5045 TCGA-50-5051 
       14.07        29.46        12.99         4.93        71.47        14.96 
TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5936 TCGA-50-5941 TCGA-50-5942 
       25.81        49.28        35.87         8.45         9.37         4.44 
TCGA-50-5944 TCGA-53-7626 TCGA-55-6712 TCGA-55-6970 TCGA-55-6972 TCGA-55-6984 
       12.26        31.89         0.79        15.25        48.49        24.99 
TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 TCGA-55-7576 
       71.05         2.01         0.59         1.12         0.13         1.32 
TCGA-55-7725 TCGA-55-7727 TCGA-55-7903 TCGA-55-7911 TCGA-55-7914 TCGA-55-8090 
        1.28         1.02         0.62         0.69         0.10         0.20 
TCGA-55-8097 TCGA-55-8510 TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 TCGA-55-8621 
        0.49         7.46         0.10         4.80         1.61         3.45 
TCGA-55-A48X TCGA-55-A492 TCGA-62-8399 TCGA-62-A472 TCGA-64-1680 TCGA-64-1681 
        1.08         0.03        68.81        17.75        37.02        44.38 
TCGA-64-5778 TCGA-64-5815 TCGA-67-3770 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 
       30.44         7.33         0.99         2.04         0.59         0.89 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 
        0.69        13.87         6.12        22.68        13.61         4.24 
TCGA-69-8253 TCGA-69-8254 TCGA-73-4676 TCGA-73-7498 TCGA-78-7143 TCGA-78-7145 
        3.25         2.50         4.01        20.42       163.10        27.16 
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-78-7160 TCGA-78-7162 TCGA-78-7166 TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 
       22.29       104.15         8.48        88.11        53.33        28.96 
TCGA-78-7633 TCGA-86-8076 TCGA-86-8278 TCGA-86-8280 TCGA-86-8668 TCGA-86-A4P8 
       32.68         0.85         0.76         0.53         1.45         1.28 
TCGA-91-6835 TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 TCGA-95-7567 TCGA-95-7947 
        1.15         0.92         1.02         9.76         5.36         1.32 
TCGA-95-7948 TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 
        4.34        31.66        48.53        43.76         0.59         0.72 
TCGA-97-8174 TCGA-97-8179 TCGA-99-7458 TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG 
        5.36         0.49         8.22        15.06         9.27         7.82 
TCGA-L4-A4E6 
        2.50 

$subtype2
TCGA-05-4382 TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 
       19.92        37.02         9.96        24.03        47.05         8.02 
TCGA-05-4415 TCGA-05-4418 TCGA-05-4420 TCGA-05-4424 TCGA-05-4430 TCGA-05-4432 
        2.96         8.98        29.95        30.02        25.02        25.02 
TCGA-05-4433 TCGA-05-4434 TCGA-05-5420 TCGA-05-5423 TCGA-05-5425 TCGA-05-5715 
       24.00        15.02         1.02         4.96         2.96         2.04 
TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4628 TCGA-38-4630 TCGA-38-4632 
        5.95         8.68        47.61        49.02        35.28        44.61 
TCGA-44-2656 TCGA-44-2659 TCGA-44-2662 TCGA-44-3396 TCGA-44-3918 TCGA-44-5643 
       19.10        17.39        15.78        10.22         6.44         3.48 
TCGA-44-5644 TCGA-44-7660 TCGA-44-7670 TCGA-44-8117 TCGA-44-8119 TCGA-44-A47A 
       16.37         5.33        17.46         8.52         3.22         6.64 
TCGA-44-A4SS TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4501 TCGA-49-4506 
        3.75        28.57        12.66        35.54        46.72        32.84 
TCGA-49-4507 TCGA-49-4514 TCGA-49-6743 TCGA-50-5049 TCGA-50-5066 TCGA-50-5930 
        8.81        43.20        12.13        48.82         9.76         9.27 
TCGA-50-5931 TCGA-50-5935 TCGA-50-5946 TCGA-50-6590 TCGA-50-6592 TCGA-50-6597 
        8.78        21.47        11.47        42.31        25.51        33.37 
TCGA-50-6673 TCGA-53-7624 TCGA-53-7813 TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 
        0.72        35.11        13.74        23.05        38.73        48.62 
TCGA-55-1596 TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6979 TCGA-55-6981 
       45.17         2.86        42.48        40.70         7.76        45.34 
TCGA-55-6987 TCGA-55-7728 TCGA-55-7815 TCGA-55-7907 TCGA-55-7910 TCGA-55-8087 
       38.47         0.79         1.78         0.53         6.48         0.69 
TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 TCGA-55-8301 TCGA-55-8511 TCGA-55-8514 
        3.02         0.85         0.13         1.41         0.30         6.97 
TCGA-55-8615 TCGA-55-8616 TCGA-55-8620 TCGA-55-A48Z TCGA-55-A490 TCGA-55-A493 
        0.49         1.58         2.14         0.95         1.58         0.92 
TCGA-55-A494 TCGA-62-A46O TCGA-62-A470 TCGA-64-1677 TCGA-64-1678 TCGA-64-5774 
        0.16        47.77        39.22        20.65        39.09        83.84 
TCGA-64-5779 TCGA-67-3771 TCGA-69-7760 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 
       16.67         1.97         5.06         7.56         6.05         2.30 
TCGA-69-7979 TCGA-69-7980 TCGA-69-8255 TCGA-73-4659 TCGA-73-4662 TCGA-73-7499 
        2.93        12.56         4.21        23.38        29.95        17.06 
TCGA-78-7146 TCGA-78-7147 TCGA-78-7150 TCGA-78-7155 TCGA-78-7158 TCGA-78-7159 
        5.65        19.27        21.86        38.50         5.88        40.11 
TCGA-78-7161 TCGA-78-7220 TCGA-78-7536 TCGA-78-7539 TCGA-78-7542 TCGA-83-5908 
        7.04        26.53         8.02        10.75        10.55        13.81 
TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 
        0.36         0.89         0.23         1.12         0.46         0.62 
TCGA-86-8279 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 TCGA-86-8669 TCGA-86-A456 
        0.69         0.62         0.85         1.12         1.08         0.33 
TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6830 TCGA-91-6831 TCGA-91-6836 TCGA-93-8067 
        0.99         1.22         0.03         1.28         0.36         6.08 
TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 TCGA-97-7547 TCGA-97-8171 TCGA-97-8172 
        1.12         0.07         0.69        47.18         3.48         5.95 
TCGA-99-8025 TCGA-99-8033 TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 
       14.04         5.56         3.72         9.44         6.97         0.20 
TCGA-MN-A4N4 
       20.42 

$subtype3
TCGA-05-4249 TCGA-05-4405 TCGA-05-4417 TCGA-05-4427 TCGA-38-4627 TCGA-38-4629 
       38.07        20.05        14.93        26.01        37.71        28.37 
TCGA-38-4631 TCGA-38-6178 TCGA-44-2665 TCGA-44-2668 TCGA-44-6144 TCGA-44-6147 
       11.64         5.19        13.15         8.09         0.30         7.76 
TCGA-44-6774 TCGA-44-6775 TCGA-44-6778 TCGA-44-6779 TCGA-44-7662 TCGA-44-7667 
        5.42         2.70        36.49        16.41         1.64        18.31 
TCGA-44-7669 TCGA-44-A479 TCGA-44-A4SU TCGA-49-4512 TCGA-49-6742 TCGA-49-6761 
       18.87         8.38         2.50        29.75        15.02         0.03 
TCGA-50-5044 TCGA-50-5072 TCGA-50-5933 TCGA-50-5939 TCGA-50-6591 TCGA-50-6593 
       20.48         8.05        77.88        15.12         3.88        11.05 
TCGA-50-6594 TCGA-50-6595 TCGA-50-7109 TCGA-55-6543 TCGA-55-6642 TCGA-55-6971 
       12.16         6.21         8.38         0.07        32.61         0.92 
TCGA-55-6978 TCGA-55-6980 TCGA-55-6982 TCGA-55-6983 TCGA-55-6985 TCGA-55-7574 
        5.46         2.20        32.71        60.03        40.54         3.12 
TCGA-55-7726 TCGA-55-7816 TCGA-55-8299 TCGA-55-A48Y TCGA-55-A4DG TCGA-62-A46P 
        1.02         1.02         7.07         1.02         5.29        19.53 
TCGA-64-1676 TCGA-64-1679 TCGA-64-5775 TCGA-64-5781 TCGA-67-3772 TCGA-71-6725 
       56.81        55.40         0.10        39.52         0.59         2.01 
TCGA-73-4658 TCGA-73-4675 TCGA-78-7163 TCGA-78-7535 TCGA-86-8055 TCGA-86-8073 
       52.57         1.32       223.96        31.20         0.33         0.43 
TCGA-86-8074 TCGA-86-8075 TCGA-86-8671 TCGA-86-8672 TCGA-91-6829 TCGA-91-6847 
        0.79         1.41         0.56         0.49        41.33        26.93 
TCGA-91-6848 TCGA-93-7348 TCGA-97-7554 TCGA-97-7937 TCGA-97-8177 TCGA-99-8032 
        4.18         4.18         8.65         5.95         4.80         1.45 
TCGA-J2-8192 TCGA-L9-A443 
        5.03         3.81 

subtype1 subtype2 subtype3 
    0.03     0.03     0.03 
subtype1 subtype2 subtype3 
  163.10    83.84   223.96 
subtype1 subtype2 subtype3 
   7.820    8.520    7.905 
[1] "0.0 - 163.1 (7.8)" "0.0 - 83.8 (8.5)"  "0.0 - 224.0 (7.9)"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
 [79] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[151] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[205] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[211] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[247] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[253] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[265] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[283] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[307] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[325] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[343] "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
 [79] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[151] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[205] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[211] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[247] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[253] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[265] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[283] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[307] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[325] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[343] "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
 [79] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[151] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[205] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[211] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[247] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[253] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[265] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[283] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[307] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[325] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[343] "subtype1" "subtype3" "subtype2" "subtype2"
D9V2, continuous
D9V3, binary
          cls
clus        0  1
  subtype1 77 63
  subtype2 86 79
  subtype3 46 35
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   77   63
  subtype2   86   79
  subtype3   46   35
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       77       86       46
  MALE         63       79       35
D9V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
      11       14        2 
 [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[25] "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                29
  subtype2                          6                                40
  subtype3                          0                                 9
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 78
  subtype2                                                104
  subtype3                                                 60
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          3
  subtype2                                          0
  subtype3                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             4
  subtype3                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              2                                  0
  subtype3                              0                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             8
  subtype2                            0                             5
  subtype3                            0                             5
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA MUCINOUS (COLLOID) CARCINOMA
  subtype1                                 1                            3
  subtype2                                 1                            0
  subtype3                                 2                            0
D9V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 36 57  9  6
  subtype2 28 69  9  7
  subtype3 15 39  5  3
D9V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 65 25    16
  subtype2 66 22    23
  subtype3 38 10    13
D9V7, multiclass
          vv
clus       M0 M1 MX
  subtype1 73  6 27
  subtype2 87  6 18
  subtype3 39  2 20
D9V8, multiclass
          vv
clus        I II III IV
  subtype1 60 22  16  7
  subtype2 57 25  26  5
  subtype3 31 12  16  3
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1   7 133
  subtype2   9 156
  subtype3   3  78
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  133
  subtype2    9  156
  subtype3    3   78
     clus
vv    subtype1 subtype2 subtype3
  NO         7        9        3
  YES      133      156       78
D9V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          35
  subtype2                                          37
  subtype3                                          24
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     39             17
  subtype2                                     26             32
  subtype3                                     12             13
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  11
  subtype2                  14
  subtype3                  12
D9V12, multiclass
D9V13, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  83   1   2   5
  subtype2 108   5   2   5
  subtype3  38   3   0   4
D9V14, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  94  25
  subtype2 142  44
  subtype3  27  14
subtype1 subtype2 subtype3 
     119      186       41 
subtype1 subtype2 subtype3 
      25       44       14 
$subtype1
TCGA-05-4250 TCGA-05-4384 TCGA-05-4426 TCGA-05-4433 TCGA-05-5429 TCGA-35-3615 
        3.98        14.01        26.01        24.00         0.99         0.46 
TCGA-35-4122 TCGA-38-7271 TCGA-38-A44F TCGA-44-2657 TCGA-44-2661 TCGA-44-2666 
        7.36        26.30         4.37        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-44-6779 TCGA-44-7659 
        7.76         3.12        63.72        32.45        16.41         9.80 
TCGA-44-7671 TCGA-44-7672 TCGA-44-A47F TCGA-44-A47G TCGA-49-4487 TCGA-49-4505 
       17.59        13.74         8.09         4.44        28.11        14.07 
TCGA-49-4510 TCGA-49-6744 TCGA-49-6745 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 
       29.46        12.99         4.93        25.81        49.28        35.87 
TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 
        8.45        15.12         9.37         4.44        12.26        11.05 
TCGA-50-6597 TCGA-53-7626 TCGA-55-1595 TCGA-55-6712 TCGA-55-6970 TCGA-55-6972 
       33.37        31.89        48.62         0.79        15.25        48.49 
TCGA-55-6980 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 TCGA-55-7227 
        2.20        60.03        24.99        40.54        71.05         2.01 
TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7576 TCGA-55-7725 
        0.59         1.12         0.13         3.12         1.32         1.28 
TCGA-55-7727 TCGA-55-7728 TCGA-55-7816 TCGA-55-7911 TCGA-55-7914 TCGA-55-8090 
        1.02         0.79         1.02         0.69         0.10         0.20 
TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X TCGA-55-A492 
        0.10         4.80         1.61         3.45         1.08         0.03 
TCGA-62-A472 TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 TCGA-64-5815 TCGA-67-3770 
       17.75        37.02        44.38        30.44         7.33         0.99 
TCGA-67-3774 TCGA-67-6215 TCGA-67-6217 TCGA-69-7763 TCGA-69-7765 TCGA-69-8253 
        0.59         0.89        13.87        22.68         4.24         3.25 
TCGA-69-8254 TCGA-73-4675 TCGA-73-4676 TCGA-73-7498 TCGA-78-7147 TCGA-78-7148 
        2.50         1.32         4.01        20.42        19.27        20.58 
TCGA-78-7149 TCGA-78-7152 TCGA-78-7154 TCGA-78-7156 TCGA-78-7160 TCGA-78-7162 
       35.93        39.48        19.50        32.09        22.29       104.15 
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-A4P8 TCGA-91-6849 TCGA-93-7347 TCGA-95-7567 TCGA-95-7947 TCGA-97-7546 
        1.28         0.92         9.76         5.36         1.32        31.66 
TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 TCGA-97-8174 TCGA-97-8179 
       48.53        43.76         0.59         0.72         5.36         0.49 
TCGA-99-7458 TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
        8.22        15.06         9.27         7.82         2.50 

$subtype2
TCGA-05-4382 TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 
       19.92        37.02         9.96        24.03        47.05         8.02 
TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 TCGA-05-4420 TCGA-05-4424 TCGA-05-4427 
        2.96        14.93         8.98        29.95        30.02        26.01 
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-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4628 TCGA-38-4630 
        2.04         5.95         8.68        47.61        49.02        35.28 
TCGA-38-4631 TCGA-38-4632 TCGA-44-2656 TCGA-44-2659 TCGA-44-2662 TCGA-44-2668 
       11.64        44.61        19.10        17.39        15.78         8.09 
TCGA-44-3396 TCGA-44-3918 TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 
       10.22         6.44         3.48        16.37         0.30        36.49 
TCGA-44-7660 TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 TCGA-44-8117 
        5.33         1.64        18.31        18.87        17.46         8.52 
TCGA-44-8119 TCGA-44-A479 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4486 TCGA-49-4488 
        3.22         8.38         6.64         3.75        76.21        28.57 
TCGA-49-4490 TCGA-49-4494 TCGA-49-4501 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 
       12.66        35.54        46.72        32.84         8.81        43.20 
TCGA-49-6742 TCGA-49-6743 TCGA-49-6761 TCGA-50-5049 TCGA-50-5051 TCGA-50-5066 
       15.02        12.13         0.03        48.82        14.96         9.76 
TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5935 TCGA-50-5946 TCGA-50-6590 
        8.05         9.27         8.78        21.47        11.47        42.31 
TCGA-50-6592 TCGA-50-6594 TCGA-50-6673 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 
       25.51        12.16         0.72         8.38        35.11        13.74 
TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 
       23.05        38.73        45.17         2.86        32.61        42.48 
TCGA-55-6969 TCGA-55-6971 TCGA-55-6978 TCGA-55-6979 TCGA-55-6981 TCGA-55-6982 
       40.70         0.92         5.46         7.76        45.34        32.71 
TCGA-55-6987 TCGA-55-7815 TCGA-55-7907 TCGA-55-7910 TCGA-55-8087 TCGA-55-8089 
       38.47         1.78         0.53         6.48         0.69         3.02 
TCGA-55-8092 TCGA-55-8094 TCGA-55-8097 TCGA-55-8301 TCGA-55-8510 TCGA-55-8511 
        0.85         0.13         0.49         1.41         7.46         0.30 
TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 TCGA-55-8620 TCGA-55-A48Z TCGA-55-A490 
        6.97         0.49         1.58         2.14         0.95         1.58 
TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DG TCGA-62-8399 TCGA-62-A46O TCGA-62-A470 
        0.92         0.16         5.29        68.81        47.77        39.22 
TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 TCGA-64-1679 TCGA-64-5774 TCGA-64-5775 
       56.81        20.65        39.09        55.40        83.84         0.10 
TCGA-64-5779 TCGA-64-5781 TCGA-67-3771 TCGA-67-3772 TCGA-67-3773 TCGA-69-7760 
       16.67        39.52         1.97         0.59         2.04         5.06 
TCGA-69-7761 TCGA-69-7764 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 
        6.12        13.61         7.56         6.05         2.30         2.93 
TCGA-69-7980 TCGA-69-8255 TCGA-73-4659 TCGA-73-4662 TCGA-73-7499 TCGA-78-7146 
       12.56         4.21        23.38        29.95        17.06         5.65 
TCGA-78-7150 TCGA-78-7153 TCGA-78-7155 TCGA-78-7158 TCGA-78-7159 TCGA-78-7161 
       21.86        24.99        38.50         5.88        40.11         7.04 
TCGA-78-7220 TCGA-78-7536 TCGA-78-7539 TCGA-78-7542 TCGA-83-5908 TCGA-86-7701 
       26.53         8.02        10.75        10.55        13.81         0.36 
TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 
        0.89         0.23         1.12         0.46         0.62         0.33 
TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 
        0.43         1.41         0.69         0.62         0.85         1.12 
TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 TCGA-86-A456 TCGA-86-A4D0 TCGA-91-6828 
        1.08         0.56         0.49         0.33         0.99         1.22 
TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 TCGA-91-6847 
       41.33         0.03         1.28         1.15         0.36        26.93 
TCGA-91-6848 TCGA-91-7771 TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 
        4.18         1.02         6.08         1.12         0.07         0.69 
TCGA-95-7948 TCGA-97-7547 TCGA-97-8171 TCGA-97-8172 TCGA-99-8025 TCGA-99-8032 
        4.34        47.18         3.48         5.95        14.04         1.45 
TCGA-99-8033 TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N4 
        5.56         3.72         9.44         6.97         0.20        20.42 

$subtype3
TCGA-05-4249 TCGA-05-4405 TCGA-38-4626 TCGA-38-4627 TCGA-38-4629 TCGA-38-6178 
       38.07        20.05        85.32        37.71        28.37         5.19 
TCGA-44-2655 TCGA-44-2665 TCGA-44-6774 TCGA-44-6775 TCGA-44-7661 TCGA-44-A4SU 
       18.87        13.15         5.42         2.70         5.03         2.50 
TCGA-49-4512 TCGA-50-5044 TCGA-50-5045 TCGA-50-5933 TCGA-50-6591 TCGA-50-6595 
       29.75        20.48        71.47        77.88         3.88         6.21 
TCGA-55-6543 TCGA-55-7726 TCGA-55-7903 TCGA-55-8299 TCGA-55-A48Y TCGA-62-A46P 
        0.07         1.02         0.62         7.07         1.02        19.53 
TCGA-67-6216 TCGA-71-6725 TCGA-73-4658 TCGA-78-7143 TCGA-78-7145 TCGA-78-7163 
        0.69         2.01        52.57       163.10        27.16       223.96 
TCGA-78-7166 TCGA-78-7535 TCGA-86-8074 TCGA-86-8278 TCGA-86-8668 TCGA-93-7348 
        8.48        31.20         0.79         0.76         1.45         4.18 
TCGA-97-7554 TCGA-97-7937 TCGA-97-8177 TCGA-J2-8192 TCGA-L9-A443 
        8.65         5.95         4.80         5.03         3.81 

subtype1 subtype2 subtype3 
    0.03     0.03     0.07 
subtype1 subtype2 subtype3 
  104.15    83.84   223.96 
subtype1 subtype2 subtype3 
   8.220    8.035    6.210 
[1] "0.0 - 104.2 (8.2)" "0.0 - 83.8 (8.0)"  "0.1 - 224.0 (6.2)"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[127] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[229] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[253] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[265] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[325] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[343] "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[127] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[229] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[253] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[265] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[325] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[343] "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[127] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[169] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[229] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[253] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[265] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[325] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[343] "subtype1" "subtype3" "subtype2" "subtype2"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1  71  62
  subtype2 104 104
  subtype3  34  11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   71   62
  subtype2  104  104
  subtype3   34   11
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       71      104       34
  MALE         62      104       11
D10V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
      11       14        2 
 [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[25] "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          4                                30
  subtype2                          7                                45
  subtype3                          0                                 3
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 72
  subtype2                                                138
  subtype3                                                 32
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             6
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  0
  subtype2                              1                                  0
  subtype3                              0                                  2
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             7
  subtype2                            0                             7
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) ADENOCARCINOMA MUCINOUS (COLLOID) CARCINOMA
  subtype1                                 3                            2
  subtype2                                 1                            0
  subtype3                                 0                            1
D10V5, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 34 55 10  5
  subtype2 37 89 12  8
  subtype3  8 21  1  3
D10V6, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 62 23    16
  subtype2 89 26    29
  subtype3 18  8     7
D10V7, multiclass
          vv
clus        M0  M1  MX
  subtype1  71   5  27
  subtype2 104   7  33
  subtype3  24   2   5
D10V8, multiclass
          vv
clus        I II III IV
  subtype1 58 20  17  7
  subtype2 75 32  33  6
  subtype3 15  7   8  2
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   5 128
  subtype2  11 197
  subtype3   3  42
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  128
  subtype2   11  197
  subtype3    3   42
     clus
vv    subtype1 subtype2 subtype3
  NO         5       11        3
  YES      128      197       42
D10V11, continuous
          vv
clus       CURRENT REFORMED SMOKER FOR < OR = 15 YEARS
  subtype1                                          39
  subtype2                                          49
  subtype3                                           8
          vv
clus       CURRENT REFORMED SMOKER FOR > 15 YEARS CURRENT SMOKER
  subtype1                                     34             16
  subtype2                                     34             41
  subtype3                                      9              5
          vv
clus       LIFELONG NON-SMOKER
  subtype1                  11
  subtype2                  18
  subtype3                   8
D10V12, multiclass
D10V13, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  72   1   2   6
  subtype2 129   6   2   6
  subtype3  28   2   0   2
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")
