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

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

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

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

> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LUAD-TP/6161529/LUAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/LUAD-TP/6154697/LUAD-TP.merged_data.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=.05", "-cQ=0.25", "-MF=ALL", "-oT=LUAD-TP", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=LUAD-TP"
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/LUAD-TP/6154697/LUAD-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LUAD-TP/6161529/LUAD-TP.mergedcluster.txt"

nPatients in clinical file=461, in cluster file=498, common to both=459
[1]  12 459
[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 
180 189  86 
  1   2   3 
180 189  86 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
133 129 134 
  1   2   3 
133 129 134 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
95 68 74 
 1  2  3 
95 68 74 
[1] "RPPA_CHIERARCHICAL"
[1] 3
  1   2   3 
107  70  60 
  1   2   3 
107  70  60 
[1] "MRNASEQ_CNMF"
[1] 3
  1   2   3   4   5 
132 101  70 101  46 
  1   2   3   4   5 
132 101  70 101  46 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
115 187 148 
  1   2   3 
115 187 148 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
159 221  72 
  1   2   3 
159 221  72 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 49 239 164 
  1   2   3 
 49 239 164 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
139 177  73 
  1   2   3 
139 177  73 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3 
 45 180 164 
  1   2   3 
 45 180 164 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDESEASE"                  
 [6] "NEOPLASM.DISEASESTAGE"                 
 [7] "PATHOLOGY.T.STAGE"                     
 [8] "PATHOLOGY.N.STAGE"                     
 [9] "PATHOLOGY.M.STAGE"                     
[10] "DCCUPLOADDATE"                         
[11] "GENDER"                                
[12] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[13] "DAYSTOLASTKNOWNALIVE"                  
[14] "RADIATIONTHERAPY"                      
[15] "KARNOFSKYPERFORMANCESCORE"             
[16] "HISTOLOGICALTYPE"                      
[17] "RADIATIONS.RADIATION.REGIMENINDICATION"
[18] "NUMBERPACKYEARSSMOKED"                 
[19] "YEAROFTOBACCOSMOKINGONSET"             
[20] "COMPLETENESS.OF.RESECTION"             
[21] "GLEASON_SCORE"                         
[22] "PSA_VALUE"                             
[23] "DAYS_TO_PSA"                           
[24] "BATCHNUMBER"                           

Input Data has 24 rows and 459 columns.

[1] "Batch" "24"   
[1] "Last Follow UP"
TCGA-05-4244 TCGA-05-4249 TCGA-05-4250 TCGA-05-4382 TCGA-05-4384 TCGA-05-4389 
          NA         1523           NA          606          426         1369 
TCGA-05-4390 TCGA-05-4395 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 
        1126           NA           NA           NA         1431           NA 
TCGA-05-4403 TCGA-05-4405 TCGA-05-4410 TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 
         578          610           NA           NA          454           NA 
TCGA-05-4420 TCGA-05-4422 TCGA-05-4424 TCGA-05-4425 TCGA-05-4426 TCGA-05-4427 
         911          365          913          669          791          791 
TCGA-05-4430 TCGA-05-4432 TCGA-05-4433 TCGA-05-4434 TCGA-05-5420 TCGA-05-5423 
         761          761          730           NA          457          151 
TCGA-05-5425 TCGA-05-5428 TCGA-05-5429 TCGA-05-5715 TCGA-35-3615 TCGA-35-4122 
         881          670           30           62           14          224 
TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4626 TCGA-38-4627 TCGA-38-4628 
         181          264         2973         3674         1147         1491 
TCGA-38-4629 TCGA-38-4630 TCGA-38-4631 TCGA-38-4632 TCGA-38-6178 TCGA-38-7271 
         863         1073          354         1357          448           NA 
TCGA-38-A44F TCGA-44-2655 TCGA-44-2656 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 
         133         1323         1429          400         1367          741 
TCGA-44-2662 TCGA-44-2664 TCGA-44-2665 TCGA-44-2666 TCGA-44-2668 TCGA-44-3396 
        1280         1251         1301           97          246         1130 
TCGA-44-3398 TCGA-44-3917 TCGA-44-3918 TCGA-44-3919 TCGA-44-4112 TCGA-44-5643 
        1163         1183         1036          189          722         1013 
TCGA-44-5644 TCGA-44-5645 TCGA-44-6144 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 
         863          383          723          328          302          845 
TCGA-44-6148 TCGA-44-6774 TCGA-44-6775 TCGA-44-6776 TCGA-44-6777 TCGA-44-6778 
         362          658          705         1938           NA         1110 
TCGA-44-6779 TCGA-44-7659 TCGA-44-7660 TCGA-44-7661 TCGA-44-7662 TCGA-44-7667 
          NA          444          325          366          218          557 
TCGA-44-7669 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-44-8117 TCGA-44-8119 
          NA          882          535          719          385           98 
TCGA-44-8120 TCGA-44-A479 TCGA-44-A47A TCGA-44-A47B TCGA-44-A47F TCGA-44-A47G 
         260          485          466          287          337          135 
TCGA-44-A4SS TCGA-44-A4SU TCGA-49-4486 TCGA-49-4487 TCGA-49-4488 TCGA-49-4490 
         114           76         2318           NA           NA           NA 
TCGA-49-4494 TCGA-49-4501 TCGA-49-4505 TCGA-49-4506 TCGA-49-4507 TCGA-49-4510 
        1081         1421          428          999          268          896 
TCGA-49-4512 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-49-6744 TCGA-49-6745 
         157         1700          457          369          890          521 
TCGA-49-6761 TCGA-49-6767 TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5051 
         354           NA           NA         2174         2146          455 
TCGA-50-5055 TCGA-50-5066 TCGA-50-5068 TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 
         785          944         1499          245          282          267 
TCGA-50-5932 TCGA-50-5933 TCGA-50-5935 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 
        1091         2369          653           NA           NA          567 
TCGA-50-5942 TCGA-50-5944 TCGA-50-5946 TCGA-50-6590 TCGA-50-6591 TCGA-50-6592 
         882          764          686           NA           NA           NA 
TCGA-50-6593 TCGA-50-6594 TCGA-50-6595 TCGA-50-6597 TCGA-50-6673 TCGA-50-7109 
          NA           NA           NA         1015           NA          255 
TCGA-53-7624 TCGA-53-7626 TCGA-53-7813 TCGA-53-A4EZ TCGA-55-1592 TCGA-55-1594 
          NA           NA          424          280          701         1178 
TCGA-55-1595 TCGA-55-1596 TCGA-55-5899 TCGA-55-6543 TCGA-55-6642 TCGA-55-6712 
        1479         1374           87            2          992           24 
TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 TCGA-55-6972 TCGA-55-6975 
          NA         1238           NA           28         1475           NA 
TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6983 
          NA           NA           67           NA           NA         1826 
TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 TCGA-55-6987 TCGA-55-7227 TCGA-55-7281 
          NA         1233         2161         1170           61           18 
TCGA-55-7283 TCGA-55-7570 TCGA-55-7573 TCGA-55-7574 TCGA-55-7576 TCGA-55-7724 
          34           NA            4           95           40           NA 
TCGA-55-7725 TCGA-55-7726 TCGA-55-7727 TCGA-55-7728 TCGA-55-7815 TCGA-55-7816 
          39           31           31           24           54           31 
TCGA-55-7903 TCGA-55-7907 TCGA-55-7910 TCGA-55-7911 TCGA-55-7914 TCGA-55-7994 
          19           16          197           21            3           31 
TCGA-55-7995 TCGA-55-8085 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8091 
           5           33           21           92            6           43 
TCGA-55-8092 TCGA-55-8094 TCGA-55-8096 TCGA-55-8097 TCGA-55-8204 TCGA-55-8206 
          26            4           47           15           NA           46 
TCGA-55-8207 TCGA-55-8299 TCGA-55-8301 TCGA-55-8302 TCGA-55-8505 TCGA-55-8506 
          66          215           43           22           29           11 
TCGA-55-8507 TCGA-55-8508 TCGA-55-8510 TCGA-55-8511 TCGA-55-8512 TCGA-55-8513 
          NA           NA          227            9            3          146 
TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 TCGA-55-8619 TCGA-55-8620 TCGA-55-8621 
         212           15           48           49           65          105 
TCGA-55-A48X TCGA-55-A48Y TCGA-55-A48Z TCGA-55-A490 TCGA-55-A491 TCGA-55-A492 
          33           31           29           48           NA            1 
TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DF TCGA-55-A4DG TCGA-62-8394 TCGA-62-8395 
          28            5           47          161           NA         1215 
TCGA-62-8397 TCGA-62-8398 TCGA-62-8399 TCGA-62-8402 TCGA-62-A46O TCGA-62-A46P 
        1289           NA         2345         1444           NA           NA 
TCGA-62-A46R TCGA-62-A46S TCGA-62-A46U TCGA-62-A46V TCGA-62-A470 TCGA-62-A471 
          NA           NA         2067         2199           NA         1245 
TCGA-62-A472 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 TCGA-64-1679 TCGA-64-1680 
         910         1728          628         1189         1685         1126 
TCGA-64-1681 TCGA-64-5774 TCGA-64-5775 TCGA-64-5778 TCGA-64-5779 TCGA-64-5781 
          NA         2676           62         1305          864         1559 
TCGA-64-5815 TCGA-67-3770 TCGA-67-3771 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 
         865           30          609          573          427          385 
TCGA-67-4679 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7760 TCGA-69-7761 
          NA          173          140          422          202          186 
TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 
         690          414          165          230          184           70 
TCGA-69-7979 TCGA-69-7980 TCGA-69-8253 TCGA-69-8254 TCGA-69-8255 TCGA-69-A59K 
          89          382           99           76          128          214 
TCGA-71-6725 TCGA-73-4658 TCGA-73-4659 TCGA-73-4662 TCGA-73-4666 TCGA-73-4668 
          61         1599          711          911          799          467 
TCGA-73-4670 TCGA-73-4675 TCGA-73-4676 TCGA-73-4677 TCGA-73-7498 TCGA-73-7499 
         130           40          164           38          621          519 
TCGA-75-5122 TCGA-75-5125 TCGA-75-5126 TCGA-75-5146 TCGA-75-5147 TCGA-75-6203 
          NA           NA           NA           NA           NA           NA 
TCGA-75-6205 TCGA-75-6206 TCGA-75-6207 TCGA-75-6211 TCGA-75-6212 TCGA-75-6214 
          NA           NA           NA           NA           NA           NA 
TCGA-75-7025 TCGA-75-7027 TCGA-75-7030 TCGA-75-7031 TCGA-78-7143 TCGA-78-7145 
          NA           NA           NA           NA           NA           NA 
TCGA-78-7146 TCGA-78-7147 TCGA-78-7148 TCGA-78-7149 TCGA-78-7150 TCGA-78-7152 
          NA           NA           NA         1093           NA         1201 
TCGA-78-7153 TCGA-78-7154 TCGA-78-7155 TCGA-78-7156 TCGA-78-7158 TCGA-78-7159 
         760           NA           NA           NA           NA         1220 
TCGA-78-7160 TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 TCGA-78-7166 TCGA-78-7167 
         678          214           NA         6812           NA           NA 
TCGA-78-7220 TCGA-78-7535 TCGA-78-7536 TCGA-78-7537 TCGA-78-7539 TCGA-78-7540 
          NA           NA           NA           NA          327          881 
TCGA-78-7542 TCGA-78-7633 TCGA-78-8640 TCGA-78-8648 TCGA-78-8655 TCGA-78-8660 
          NA          994         6345           NA         2360           NA 
TCGA-78-8662 TCGA-80-5607 TCGA-80-5608 TCGA-80-5611 TCGA-83-5908 TCGA-86-6562 
          NA           NA           NA           NA          823           NA 
TCGA-86-6851 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7714 TCGA-86-7953 
          NA           11          630          422           NA          591 
TCGA-86-7954 TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 TCGA-86-8056 TCGA-86-8073 
          NA          508          745           10           NA           13 
TCGA-86-8074 TCGA-86-8075 TCGA-86-8076 TCGA-86-8278 TCGA-86-8279 TCGA-86-8280 
          24          479          332          476          482           16 
TCGA-86-8281 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 TCGA-86-8668 TCGA-86-8669 
          NA           19           26           34           44           33 
TCGA-86-8671 TCGA-86-8672 TCGA-86-8673 TCGA-86-8674 TCGA-86-A456 TCGA-86-A4D0 
          17           15          454          404           10           30 
TCGA-86-A4JF TCGA-86-A4P7 TCGA-86-A4P8 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 
          NA           13           39          323           NA           60 
TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 
         309           79          417          372          842          224 
TCGA-91-6849 TCGA-91-7771 TCGA-91-8496 TCGA-91-8497 TCGA-91-8499 TCGA-91-A4BC 
          35          492          196          173           36           44 
TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 
         218          297          127          185           34            2 
TCGA-95-7567 TCGA-95-7944 TCGA-95-7947 TCGA-95-7948 TCGA-95-A4VK TCGA-97-7546 
         163           21           40          132          123          963 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 
        1965         1932         1331          775          181           NA 
TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 TCGA-97-8175 TCGA-97-8177 
          22          106          181           NA           86          146 
TCGA-97-8179 TCGA-97-A4M2 TCGA-97-A4M7 TCGA-99-7458 TCGA-99-8025 TCGA-99-8028 
          15          197          271          392          427          458 
TCGA-99-8032 TCGA-99-8033 TCGA-J2-8192 TCGA-J2-8194 TCGA-J2-A4AD TCGA-J2-A4AE 
          44          169          153          113          287          282 
TCGA-J2-A4AG TCGA-L4-A4E5 TCGA-L4-A4E6 TCGA-L9-A443 TCGA-L9-A444 TCGA-MN-A4N1 
         238          212           76          116            6          285 
TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SW TCGA-MP-A4SY TCGA-MP-A4T2 
         621          353           NA           NA           NA           NA 
TCGA-MP-A4T4 TCGA-MP-A4T6 TCGA-MP-A4T7 TCGA-MP-A4T8 TCGA-MP-A4T9 TCGA-MP-A4TA 
          NA           NA           NA           NA           NA           NA 
TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TE TCGA-MP-A4TF TCGA-MP-A4TH TCGA-MP-A4TI 
          NA           NA           NA           NA          142           NA 
TCGA-MP-A4TJ TCGA-MP-A4TK TCGA-MP-A5C7 
          NA           NA         1490 
Variable 1:'AGE':	nDistinctValues=51,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=113,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=272,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'NEOPLASM.DISEASESTAGE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.N.STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY.M.STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=22,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=40,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 14:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=7,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 16:'HISTOLOGICAL.TYPE':	nDistinctValues=12,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 18:'NUMBERPACKYEARSSMOKED':	nDistinctValues=90,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 19:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=57,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'GLEASON_SCORE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 22:'PSA_VALUE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 23:'DAYS_TO_PSA':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 24:'BATCH.NUMBER':	nDistinctValues=30,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "NEOPLASM.DISEASESTAGE"                 
 [3] "PATHOLOGY.T.STAGE"                     
 [4] "PATHOLOGY.N.STAGE"                     
 [5] "PATHOLOGY.M.STAGE"                     
 [6] "GENDER"                                
 [7] "KARNOFSKY.PERFORMANCE.SCORE"           
 [8] "HISTOLOGICAL.TYPE"                     
 [9] "RADIATIONS.RADIATION.REGIMENINDICATION"
[10] "NUMBERPACKYEARSSMOKED"                 
[11] "YEAROFTOBACCOSMOKINGONSET"             
[12] "COMPLETENESS.OF.RESECTION"             
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 459 columns, 1 survival variables, and 12 non-survival variables.
AGE, nv=51, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=8, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T1  T2  T3  T4 
142 256  40  18 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
142 256  40  18 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T1  T2  T3  T4 
142 256  40  18 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
142 256  40  18 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
292  86  68   2 
[1] "table(vv)"
vv
   N0    N1 N2+N3 
  292    86    70 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2  N3 
292  86  68   2 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   N0    N1 N2+N3 
  292    86    70 
PATHOLOGY.M.STAGE, nv=5, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=7, binary=FALSE, numeric=TRUE
HISTOLOGICAL.TYPE, nv=12, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=90, binary=FALSE, numeric=TRUE
YEAROFTOBACCOSMOKINGONSET, nv=57, 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  7  2
  subtype3 10  2
  subtype4  4  2
subtype1 subtype2 subtype3 subtype4 
       4        9       12        6 
subtype1 subtype2 subtype3 subtype4 
       0        2        2        2 
$subtype1
TCGA-35-4123 TCGA-44-2665 TCGA-44-3919 TCGA-55-1595 
        5.95        42.77         6.21        48.62 

$subtype2
TCGA-05-4249 TCGA-05-4250 TCGA-35-4122 TCGA-44-2656 TCGA-44-2662 TCGA-44-2668 
       50.07         3.98         7.36        46.98        42.08         8.09 
TCGA-44-3398 TCGA-44-3918 TCGA-64-1676 
       38.24        34.06        56.81 

$subtype3
TCGA-35-3615 TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 
        0.46        43.50        13.15        44.94        24.36         3.19 
TCGA-44-4112 TCGA-64-1680 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 
       23.74        37.02         0.99        18.84        14.04        12.66 

$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        20.02 

subtype1 subtype2 subtype3 subtype4 
    5.95     3.98     0.46    20.02 
subtype1 subtype2 subtype3 subtype4 
   48.62    56.81    44.94    45.17 
subtype1 subtype2 subtype3 subtype4 
   24.49    38.24    16.44    30.89 
[1] "6.0 - 48.6 (24.5)"  "4.0 - 56.8 (38.2)"  "0.5 - 44.9 (16.4)" 
[4] "20.0 - 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
          vv
clus       STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IV
  subtype1        3        0         0         1          0        1
  subtype2        4        4         0         0          1        0
  subtype3        3        7         0         1          0        1
  subtype4        2        0         1         1          2        0
D1V3, multiclass
          vv
clus       T1 T2 T3
  subtype1  3  2  0
  subtype2  4  4  1
  subtype3  4  8  0
  subtype4  1  5  0
D1V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1  3  1     1
  subtype2  8  1     0
  subtype3  9  1     1
  subtype4  3  1     2
D1V5, multiclass
          vv
clus       M0 M1
  subtype1  4  1
  subtype2  9  0
  subtype3 11  1
  subtype4  6  0
D1V6, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0        4        9       11        6
  M1        1        0        1        0
D1V7, 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
D1V8, 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
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"
D1V12, 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  1
  subtype4  6  0  0
D1V13, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1  5  2
  subtype2 11  2
  subtype3  9  2
subtype1 subtype2 subtype3 
       7       13       11 
subtype1 subtype2 subtype3 
       2        2        2 
$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 
       20.02 

$subtype2
TCGA-35-3615 TCGA-44-2655 TCGA-44-2656 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 
        0.46        43.50        46.98        13.15        44.94        24.36 
TCGA-44-2666 TCGA-44-4112 TCGA-64-1680 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 
        3.19        23.74        37.02         0.99        18.84        14.04 
TCGA-67-3774 
       12.66 

$subtype3
TCGA-05-4249 TCGA-05-4250 TCGA-35-4122 TCGA-35-4123 TCGA-44-2662 TCGA-44-2665 
       50.07         3.98         7.36         5.95        42.08        42.77 
TCGA-44-2668 TCGA-44-3398 TCGA-44-3918 TCGA-44-3919 TCGA-64-1676 
        8.09        38.24        34.06         6.21        56.81 

subtype1 subtype2 subtype3 
   20.02     0.46     3.98 
subtype1 subtype2 subtype3 
   48.62    46.98    56.81 
subtype1 subtype2 subtype3 
   38.73    18.84    34.06 
[1] "20.0 - 48.6 (38.7)" "0.5 - 47.0 (18.8)"  "4.0 - 56.8 (34.1)" 
 [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
          vv
clus       STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IV
  subtype1        3        0         1         1          2        0
  subtype2        3        8         0         1          0        1
  subtype3        6        3         0         1          1        1
D2V3, multiclass
          vv
clus       T1 T2 T3
  subtype1  2  5  0
  subtype2  4  9  0
  subtype3  6  5  1
D2V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1  4  1     2
  subtype2 10  1     1
  subtype3  9  2     1
D2V5, multiclass
          vv
clus       M0 M1
  subtype1  7  0
  subtype2 12  1
  subtype3 11  1
D2V6, multiclass
    clus
vv   subtype1 subtype2 subtype3
  M0        7       12       11
  M1        0        1        1
D2V7, 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
D2V8, 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
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
D2V12, continuous
          vv
clus       R0 R2 RX
  subtype1  6  0  0
  subtype2 10  0  1
  subtype3 10  1  1
D2V13, multiclass

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 120  47
  subtype2 125  48
  subtype3  56  23
subtype1 subtype2 subtype3 
     167      173       79 
subtype1 subtype2 subtype3 
      47       48       23 
$subtype1
TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4420 TCGA-05-4425 TCGA-05-4426 
       47.05         8.02        20.05        29.95        21.99        26.01 
TCGA-05-4427 TCGA-05-5423 TCGA-05-5425 TCGA-05-5428 TCGA-05-5715 TCGA-35-4123 
       26.01         4.96        28.96        22.03         2.04         5.95 
TCGA-38-4629 TCGA-38-4631 TCGA-38-4632 TCGA-38-6178 TCGA-44-2656 TCGA-44-2659 
       28.37        11.64        44.61        14.73        46.98        44.94 
TCGA-44-2662 TCGA-44-3919 TCGA-44-5644 TCGA-44-6144 TCGA-44-6775 TCGA-44-6777 
       42.08         6.21        28.37        23.77        23.18        32.45 
TCGA-44-6779 TCGA-44-7662 TCGA-44-8117 TCGA-44-8120 TCGA-44-A4SU TCGA-49-4488 
       16.41         7.17        12.66         8.55         2.50        28.57 
TCGA-49-4490 TCGA-49-4501 TCGA-49-4505 TCGA-49-4507 TCGA-49-4512 TCGA-49-6761 
       12.66        46.72        14.07         8.81         5.16        11.64 
TCGA-50-5045 TCGA-50-5933 TCGA-50-5944 TCGA-50-5946 TCGA-50-6591 TCGA-50-6593 
       71.47        77.88        25.12        22.55         3.88        11.05 
TCGA-50-6594 TCGA-50-6597 TCGA-53-7624 TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 
       12.16        33.37        34.26        23.05        38.73        48.62 
TCGA-55-1596 TCGA-55-6543 TCGA-55-6712 TCGA-55-6972 TCGA-55-6979 TCGA-55-6980 
       45.17         0.07         0.79        48.49         7.76         2.20 
TCGA-55-6981 TCGA-55-6982 TCGA-55-6985 TCGA-55-7283 TCGA-55-7573 TCGA-55-7576 
       45.34        32.71        40.54         1.12         0.13         1.32 
TCGA-55-7726 TCGA-55-7727 TCGA-55-7910 TCGA-55-7994 TCGA-55-7995 TCGA-55-8091 
        1.02         1.02         6.48         1.02         0.16         1.41 
TCGA-55-8096 TCGA-55-8207 TCGA-55-8302 TCGA-55-8506 TCGA-55-8510 TCGA-55-8511 
        1.55         2.17         0.72         0.36         7.46         0.30 
TCGA-55-8514 TCGA-55-8616 TCGA-55-A48Z TCGA-55-A490 TCGA-55-A4DG TCGA-62-8394 
        6.97         1.58         0.95         1.58         5.29         4.54 
TCGA-62-8395 TCGA-62-8397 TCGA-62-8399 TCGA-62-8402 TCGA-62-A46O TCGA-62-A46R 
       39.95        42.38        77.10        47.47        47.77        56.68 
TCGA-62-A46U TCGA-62-A472 TCGA-64-1676 TCGA-64-1678 TCGA-64-1679 TCGA-64-1681 
       67.96        29.92        56.81        39.09        55.40        38.33 
TCGA-64-5778 TCGA-67-3770 TCGA-67-3772 TCGA-67-6217 TCGA-69-7760 TCGA-69-7979 
       42.90         0.99        18.84        13.87         6.64         2.93 
TCGA-69-7980 TCGA-69-A59K TCGA-71-6725 TCGA-73-4662 TCGA-73-4668 TCGA-73-4670 
       12.56         7.04         2.01        29.95        15.35         4.27 
TCGA-73-4676 TCGA-73-7499 TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 TCGA-78-7150 
        5.39        17.06       163.10        27.16        19.27        21.86 
TCGA-78-7154 TCGA-78-7155 TCGA-78-7161 TCGA-78-7163 TCGA-78-7535 TCGA-78-7539 
       19.50        38.50         7.04       223.96        31.20        10.75 
TCGA-78-7542 TCGA-78-8640 TCGA-78-8655 TCGA-78-8662 TCGA-83-5908 TCGA-86-6562 
       10.55       208.60        77.59       110.50        27.06        12.36 
TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 
       20.71        13.87        19.43        16.70        24.49         0.33 
TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 TCGA-86-8280 TCGA-86-8358 TCGA-86-8359 
        0.79        15.75        15.85         0.53         0.62         0.85 
TCGA-86-8668 TCGA-86-8673 TCGA-91-6829 TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 
        1.45        14.93        41.33        13.71        27.68         7.36 
TCGA-91-8499 TCGA-95-7039 TCGA-95-7567 TCGA-95-7947 TCGA-95-A4VK TCGA-97-7546 
        1.18         1.12         5.36         1.32         4.04        31.66 
TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-8171 TCGA-97-A4M7 TCGA-99-8025 
       25.48         5.95         0.59         3.48         8.91        14.04 
TCGA-J2-8192 TCGA-J2-8194 TCGA-J2-A4AD TCGA-J2-A4AE TCGA-L4-A4E5 TCGA-L9-A444 
        5.03         3.72         9.44         9.27         6.97         0.20 
TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SW TCGA-MP-A4T2 TCGA-MP-A4T4 
        9.37        20.42        11.61        58.45        37.35        86.04 
TCGA-MP-A4T6 TCGA-MP-A4T8 TCGA-MP-A4TC TCGA-MP-A4TF TCGA-MP-A4TK 
       58.85         5.29         2.43        11.05        19.13 

$subtype2
TCGA-05-4249 TCGA-05-4382 TCGA-05-4384 TCGA-05-4396 TCGA-05-4403 TCGA-05-4418 
       50.07        19.92        14.01         9.96        19.00         8.98 
TCGA-05-4422 TCGA-05-4430 TCGA-05-4433 TCGA-05-4434 TCGA-05-5420 TCGA-05-5429 
       12.00        25.02        24.00        15.02        15.02         0.99 
TCGA-35-3615 TCGA-35-4122 TCGA-38-4626 TCGA-38-4627 TCGA-38-4630 TCGA-38-7271 
        0.46         7.36       120.79        37.71        35.28        26.30 
TCGA-38-A44F TCGA-44-2655 TCGA-44-2657 TCGA-44-2661 TCGA-44-2665 TCGA-44-2666 
        4.37        43.50        13.15        24.36        42.77         3.19 
TCGA-44-2668 TCGA-44-3396 TCGA-44-3398 TCGA-44-4112 TCGA-44-5645 TCGA-44-6145 
        8.09        37.15        38.24        23.74        12.59        10.78 
TCGA-44-6146 TCGA-44-6148 TCGA-44-6776 TCGA-44-7659 TCGA-44-7661 TCGA-44-7671 
        9.93        11.90        63.72        14.60        12.03        17.59 
TCGA-44-7672 TCGA-44-A479 TCGA-44-A47A TCGA-44-A47F TCGA-44-A47G TCGA-44-A4SS 
       23.64        15.95        15.32        11.08         4.44         3.75 
TCGA-49-4486 TCGA-49-4487 TCGA-49-4494 TCGA-49-4506 TCGA-49-4514 TCGA-49-6742 
       76.21        28.11        35.54        32.84        55.89        15.02 
TCGA-49-6743 TCGA-49-6744 TCGA-49-6745 TCGA-50-5044 TCGA-50-5049 TCGA-50-5055 
       12.13        29.26        17.13        20.48        70.55        25.81 
TCGA-50-5066 TCGA-50-5068 TCGA-50-5072 TCGA-50-5930 TCGA-50-5932 TCGA-50-5939 
       31.04        49.28         8.05         9.27        35.87        15.12 
TCGA-50-5942 TCGA-50-6590 TCGA-50-6592 TCGA-50-6595 TCGA-50-6673 TCGA-53-7626 
       29.00        42.31        25.51         6.21         0.72        30.54 
TCGA-55-6642 TCGA-55-6975 TCGA-55-6978 TCGA-55-6983 TCGA-55-6984 TCGA-55-6986 
       32.61         3.88         5.46        60.03        24.99        71.05 
TCGA-55-6987 TCGA-55-7281 TCGA-55-7574 TCGA-55-7725 TCGA-55-7728 TCGA-55-7815 
       38.47         0.59         3.12         1.28         0.79         1.78 
TCGA-55-7911 TCGA-55-7914 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8097 
        0.69         0.10         0.69         3.02         0.20         0.49 
TCGA-55-8206 TCGA-55-8299 TCGA-55-8301 TCGA-55-8505 TCGA-55-8512 TCGA-55-8513 
        1.51         7.07         1.41         0.95         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-55-A493 TCGA-55-A4DF TCGA-62-8398 TCGA-62-A46S TCGA-62-A46V TCGA-64-1680 
        0.92         1.55        14.60        54.35        72.30        37.02 
TCGA-64-5781 TCGA-64-5815 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 
       51.25        28.44        14.04        12.66         5.69         4.60 
TCGA-69-7761 TCGA-69-7763 TCGA-69-7765 TCGA-69-7974 TCGA-69-7978 TCGA-69-8253 
        6.12        22.68         5.42         6.05         2.30         3.25 
TCGA-69-8254 TCGA-73-4658 TCGA-73-4666 TCGA-73-4677 TCGA-73-7498 TCGA-78-7148 
        2.50        52.57        26.27         1.25        20.42        20.58 
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-78-8648 TCGA-78-8660 
        8.48        53.33        28.96        32.68        39.72        10.55 
TCGA-86-8073 TCGA-86-8076 TCGA-86-8278 TCGA-86-8671 TCGA-86-8672 TCGA-86-8674 
        0.43        10.92        15.65         0.56         0.49        13.28 
TCGA-86-A456 TCGA-86-A4P7 TCGA-86-A4P8 TCGA-91-6830 TCGA-91-6835 TCGA-91-6849 
        0.33         0.43         1.28         1.97         2.60         1.15 
TCGA-91-8496 TCGA-91-8497 TCGA-91-A4BC TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 
        6.44         5.69         1.45         7.17         9.76         4.18 
TCGA-95-7944 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7941 TCGA-97-8172 
        0.69        64.60        63.52        43.76         0.72         5.95 
TCGA-97-8174 TCGA-97-8175 TCGA-97-8177 TCGA-97-A4M2 TCGA-99-7458 TCGA-99-8028 
        5.36         2.83         4.80         6.48        12.89        15.06 
TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4SY TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TA 
        7.82         2.50        49.35         5.49        41.59        31.20 
TCGA-MP-A4TD TCGA-MP-A4TH TCGA-MP-A4TI TCGA-MP-A4TJ TCGA-MP-A5C7 
       10.09         4.67        14.10        11.15        48.99 

$subtype3
TCGA-05-4250 TCGA-05-4389 TCGA-05-4390 TCGA-05-4397 TCGA-05-4415 TCGA-05-4417 
        3.98        45.01        37.02        24.03         2.96        14.93 
TCGA-05-4424 TCGA-05-4432 TCGA-35-5375 TCGA-38-4625 TCGA-38-4628 TCGA-44-3918 
       30.02        25.02         8.68        97.74        49.02        34.06 
TCGA-44-5643 TCGA-44-6147 TCGA-44-6774 TCGA-44-6778 TCGA-44-7660 TCGA-44-7667 
       33.30        27.78        21.63        36.49        10.68        18.31 
TCGA-44-7669 TCGA-44-7670 TCGA-44-8119 TCGA-44-A47B TCGA-49-4510 TCGA-50-5051 
       18.87        29.00         3.22         9.44        29.46        14.96 
TCGA-50-5931 TCGA-50-5935 TCGA-50-5936 TCGA-50-5941 TCGA-50-7109 TCGA-53-7813 
        8.78        21.47         8.45        18.64         8.38        13.94 
TCGA-53-A4EZ TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 
        9.21         2.86        42.48        40.70        15.25         0.92 
TCGA-55-7903 TCGA-55-7907 TCGA-55-8085 TCGA-55-8092 TCGA-55-8094 TCGA-55-8615 
        0.62         0.53         1.08         0.85         0.13         0.49 
TCGA-55-A494 TCGA-62-A46P TCGA-62-A470 TCGA-62-A471 TCGA-64-1677 TCGA-64-5774 
        0.16        19.53        39.22        40.93        20.65        87.98 
TCGA-64-5775 TCGA-64-5779 TCGA-67-3771 TCGA-69-7764 TCGA-69-7973 TCGA-69-8255 
        2.04        28.41        20.02        13.61         7.56         4.21 
TCGA-73-4659 TCGA-73-4675 TCGA-78-7146 TCGA-78-7149 TCGA-78-7159 TCGA-78-7167 
       23.38         1.32         5.65        35.93        40.11        88.11 
TCGA-78-7220 TCGA-78-7536 TCGA-86-7701 TCGA-86-8585 TCGA-86-8669 TCGA-86-A4D0 
       26.53         8.02         0.36         1.12         1.08         0.99 
TCGA-91-6828 TCGA-91-6831 TCGA-91-6840 TCGA-91-7771 TCGA-93-8067 TCGA-95-7043 
       10.62        10.16        12.23        16.18         6.08         0.07 
TCGA-95-7948 TCGA-97-8179 TCGA-99-8032 TCGA-99-8033 TCGA-L9-A443 TCGA-MP-A4SV 
        4.34         0.49         1.45         5.56         3.81        86.14 
TCGA-MP-A4TE 
       29.42 

subtype1 subtype2 subtype3 
    0.07     0.03     0.07 
subtype1 subtype2 subtype3 
  223.96   120.79    97.74 
subtype1 subtype2 subtype3 
   13.87    12.00    13.61 
[1] "0.1 - 224.0 (13.9)" "0.0 - 120.8 (12.0)" "0.1 - 97.7 (13.6)" 
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [61] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [85] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[121] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[139] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[151] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[163] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[217] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[229] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[235] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[247] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[265] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[271] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[277] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[289] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[301] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[307] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[319] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[325] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[343] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[349] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[355] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[361] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[367] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[373] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[385] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[391] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[397] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[403] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[409] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[415] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [61] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [85] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[121] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[139] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[151] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[163] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[217] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[229] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[235] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[247] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[265] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[271] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[277] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[289] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[301] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[307] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[319] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[325] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[343] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[349] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[355] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[361] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[367] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[373] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[385] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[391] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[397] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[403] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[409] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[415] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [61] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [85] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[121] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[139] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[151] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[163] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[217] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[229] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[235] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[247] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[265] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[271] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[277] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[289] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[301] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[307] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[319] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[325] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[343] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[349] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[355] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[361] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[367] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[373] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[385] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[391] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[397] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[403] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[409] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[415] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
D3V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       2       36       53        21        29         25          5
  subtype2       0       54       56        17        26         23          3
  subtype3       1       23       22         6        10         17          3
          vv
clus       STAGE IV
  subtype1        9
  subtype2        9
  subtype3        4
D3V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  49 107  19   5
  subtype2  66 102  12   9
  subtype3  26  46   8   4
D3V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1 111  36    31
  subtype2 123  37    24
  subtype3  56  12    15
D3V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 122   8   1   0  47
  subtype2 133   6   0   2  46
  subtype3  59   4   0   1  22
D3V6, multiclass
D3V7, binary
          cls
clus         0   1
  subtype1 108  72
  subtype2 103  86
  subtype3  33  53
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  108   72
  subtype2  103   86
  subtype3   33   53
        clus
vv       subtype1 subtype2 subtype3
  FEMALE      108      103       33
  MALE         72       86       53
D3V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          6                                34
  subtype2                          3                                42
  subtype3                          4                                16
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                120
  subtype2                                                113
  subtype3                                                 59
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          2
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             9
  subtype2                                             7
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  2
  subtype2                              1                                  1
  subtype3                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             5
  subtype2                            2                            10
  subtype3                            0                             3
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               0
  subtype2                               1
  subtype3                               0
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             1
  subtype3                                             2
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            6
  subtype3                            1
D3V9, multiclass
D3V10, binary
          cls
clus         0   1
  subtype1   5 175
  subtype2  10 179
  subtype3   6  80
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  175
  subtype2   10  179
  subtype3    6   80
     clus
vv    subtype1 subtype2 subtype3
  NO         5       10        6
  YES      175      179       80
D3V11, continuous
D3V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 127   5   1   8
  subtype2 129   4   2   6
  subtype3  56   1   1   4
D3V13, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 83 38
  subtype2 90 30
  subtype3 92 30
subtype1 subtype2 subtype3 
     121      120      122 
subtype1 subtype2 subtype3 
      38       30       30 
$subtype1
TCGA-05-4384 TCGA-05-4390 TCGA-05-4415 TCGA-05-4424 TCGA-05-5423 TCGA-05-5425 
       14.01        37.02         2.96        30.02         4.96        28.96 
TCGA-05-5715 TCGA-35-5375 TCGA-38-4631 TCGA-44-6144 TCGA-44-6776 TCGA-44-7660 
        2.04         8.68        11.64        23.77        63.72        10.68 
TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 TCGA-44-7671 TCGA-44-8119 TCGA-44-A47F 
       18.31        18.87        29.00        17.59         3.22        11.08 
TCGA-44-A4SU TCGA-49-4490 TCGA-49-6742 TCGA-50-5051 TCGA-50-5072 TCGA-50-5931 
        2.50        12.66        15.02        14.96         8.05         8.78 
TCGA-50-5932 TCGA-50-5935 TCGA-50-5936 TCGA-50-5944 TCGA-50-5946 TCGA-50-6591 
       35.87        21.47         8.45        25.12        22.55         3.88 
TCGA-50-6594 TCGA-50-6673 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-53-A4EZ 
       12.16         0.72         8.38        34.26        13.94         9.21 
TCGA-55-5899 TCGA-55-6968 TCGA-55-6970 TCGA-55-6972 TCGA-55-6975 TCGA-55-7910 
        2.86        42.48        15.25        48.49         3.88         6.48 
TCGA-55-7995 TCGA-55-8085 TCGA-55-8087 TCGA-55-8094 TCGA-55-8097 TCGA-55-8206 
        0.16         1.08         0.69         0.13         0.49         1.51 
TCGA-55-8615 TCGA-55-8620 TCGA-55-A48Y TCGA-55-A48Z TCGA-55-A492 TCGA-55-A494 
        0.49         2.14         1.02         0.95         0.03         0.16 
TCGA-55-A4DF TCGA-62-8394 TCGA-62-8397 TCGA-62-8398 TCGA-62-8399 TCGA-62-8402 
        1.55         4.54        42.38        14.60        77.10        47.47 
TCGA-62-A46O TCGA-62-A46S TCGA-62-A470 TCGA-62-A471 TCGA-64-1681 TCGA-64-5774 
       47.77        54.35        39.22        40.93        38.33        87.98 
TCGA-64-5778 TCGA-64-5779 TCGA-69-7760 TCGA-69-7764 TCGA-69-7973 TCGA-69-7979 
       42.90        28.41         6.64        13.61         7.56         2.93 
TCGA-69-7980 TCGA-69-8253 TCGA-73-7498 TCGA-73-7499 TCGA-78-7146 TCGA-78-7148 
       12.56         3.25        20.42        17.06         5.65        20.58 
TCGA-78-7149 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7156 TCGA-78-7162 
       35.93        21.86        19.50        38.50        32.09       104.15 
TCGA-78-7166 TCGA-78-7167 TCGA-78-7220 TCGA-78-7536 TCGA-78-7537 TCGA-78-7633 
        8.48        88.11        26.53         8.02        53.33        32.68 
TCGA-78-8640 TCGA-86-6562 TCGA-86-7713 TCGA-86-7955 TCGA-86-8054 TCGA-86-8075 
      208.60        12.36        13.87        16.70        24.49        15.75 
TCGA-86-8358 TCGA-86-8359 TCGA-86-8669 TCGA-86-8674 TCGA-86-A4D0 TCGA-91-6829 
        0.62         0.85         1.08        13.28         0.99        41.33 
TCGA-91-6831 TCGA-91-6840 TCGA-91-6847 TCGA-91-6849 TCGA-91-7771 TCGA-91-8499 
       10.16        12.23        27.68         1.15        16.18         1.18 
TCGA-95-7043 TCGA-95-7947 TCGA-95-7948 TCGA-95-A4VK TCGA-97-7547 TCGA-97-8171 
        0.07         1.32         4.34         4.04        64.60         3.48 
TCGA-97-8179 TCGA-99-8032 TCGA-J2-8194 TCGA-J2-A4AD TCGA-L9-A443 TCGA-MP-A4TF 
        0.49         1.45         3.72         9.44         3.81        11.05 
TCGA-MP-A5C7 
       48.99 

$subtype2
TCGA-05-4396 TCGA-05-4405 TCGA-05-4417 TCGA-05-4425 TCGA-05-4427 TCGA-05-4433 
        9.96        20.05        14.93        21.99        26.01        24.00 
TCGA-05-5428 TCGA-05-5429 TCGA-38-4632 TCGA-38-6178 TCGA-44-2656 TCGA-44-3917 
       22.03         0.99        44.61        14.73        46.98        38.89 
TCGA-44-3918 TCGA-44-4112 TCGA-44-5644 TCGA-44-6779 TCGA-44-7659 TCGA-44-7662 
       34.06        23.74        28.37        16.41        14.60         7.17 
TCGA-44-7672 TCGA-44-8117 TCGA-44-8120 TCGA-44-A47A TCGA-44-A47B TCGA-49-4488 
       23.64        12.66         8.55        15.32         9.44        28.57 
TCGA-49-6745 TCGA-49-6761 TCGA-50-5933 TCGA-50-6590 TCGA-50-6597 TCGA-55-6642 
       17.13        11.64        77.88        42.31        33.37        32.61 
TCGA-55-6712 TCGA-55-6982 TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 
        0.79        32.71        71.05         2.01         0.59         1.12 
TCGA-55-7576 TCGA-55-7727 TCGA-55-7815 TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 
        1.32         1.02         1.78         0.62         0.53         0.69 
TCGA-55-7914 TCGA-55-7994 TCGA-55-8090 TCGA-55-8092 TCGA-55-8207 TCGA-55-8302 
        0.10         1.02         0.20         0.85         2.17         0.72 
TCGA-55-8506 TCGA-55-8511 TCGA-55-8514 TCGA-55-8616 TCGA-55-A490 TCGA-55-A4DG 
        0.36         0.30         6.97         1.58         1.58         5.29 
TCGA-62-8395 TCGA-62-A46P TCGA-62-A46R TCGA-62-A46U TCGA-62-A46V TCGA-62-A472 
       39.95        19.53        56.68        67.96        72.30        29.92 
TCGA-64-5775 TCGA-67-6215 TCGA-69-7763 TCGA-69-7765 TCGA-69-7974 TCGA-69-7978 
        2.04         5.69        22.68         5.42         6.05         2.30 
TCGA-69-A59K TCGA-71-6725 TCGA-73-4658 TCGA-73-4676 TCGA-78-7143 TCGA-78-7145 
        7.04         2.01        52.57         5.39       163.10        27.16 
TCGA-78-7147 TCGA-78-7152 TCGA-78-7153 TCGA-78-7158 TCGA-78-7159 TCGA-78-7161 
       19.27        39.48        24.99         5.88        40.11         7.04 
TCGA-78-7535 TCGA-78-7539 TCGA-78-7540 TCGA-78-7542 TCGA-78-8655 TCGA-78-8660 
       31.20        10.75        28.96        10.55        77.59        10.55 
TCGA-78-8662 TCGA-83-5908 TCGA-86-7701 TCGA-86-8073 TCGA-86-8074 TCGA-86-8278 
      110.50        27.06         0.36         0.43         0.79        15.65 
TCGA-86-8279 TCGA-86-8672 TCGA-86-8673 TCGA-86-A456 TCGA-91-6828 TCGA-91-6836 
       15.85         0.49        14.93         0.33        10.62        13.71 
TCGA-93-8067 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-97-8172 
        6.08         1.12         5.36        25.48         5.95         5.95 
TCGA-97-8175 TCGA-97-A4M7 TCGA-99-8025 TCGA-J2-A4AE TCGA-L4-A4E5 TCGA-L9-A444 
        2.83         8.91        14.04         9.27         6.97         0.20 
TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SW TCGA-MP-A4SY 
        9.37        20.42        11.61        86.14        58.45        49.35 
TCGA-MP-A4T6 TCGA-MP-A4T8 TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TE TCGA-MP-A4TK 
       58.85         5.29         2.43        10.09        29.42        19.13 

$subtype3
TCGA-05-5420 TCGA-38-7271 TCGA-38-A44F TCGA-44-2665 TCGA-44-2666 TCGA-44-2668 
       15.02        26.30         4.37        42.77         3.19         8.09 
TCGA-44-5643 TCGA-44-5645 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 TCGA-44-6148 
       33.30        12.59        10.78         9.93        27.78        11.90 
TCGA-44-6774 TCGA-44-6775 TCGA-44-6777 TCGA-44-6778 TCGA-44-7661 TCGA-44-A479 
       21.63        23.18        32.45        36.49        12.03        15.95 
TCGA-44-A47G TCGA-44-A4SS TCGA-49-4487 TCGA-49-4512 TCGA-49-4514 TCGA-49-6743 
        4.44         3.75        28.11         5.16        55.89        12.13 
TCGA-49-6744 TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 TCGA-50-5066 
       29.26        20.48        71.47        70.55        25.81        31.04 
TCGA-50-5068 TCGA-50-5930 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-6592 
       49.28         9.27        15.12        18.64        29.00        25.51 
TCGA-50-6593 TCGA-50-6595 TCGA-53-7626 TCGA-55-6543 TCGA-55-6969 TCGA-55-6971 
       11.05         6.21        30.54         0.07        40.70         0.92 
TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6983 TCGA-55-6984 
        5.46         7.76         2.20        45.34        60.03        24.99 
TCGA-55-6985 TCGA-55-6987 TCGA-55-7573 TCGA-55-7574 TCGA-55-7725 TCGA-55-7726 
       40.54        38.47         0.13         3.12         1.28         1.02 
TCGA-55-7728 TCGA-55-7816 TCGA-55-8089 TCGA-55-8091 TCGA-55-8096 TCGA-55-8299 
        0.79         1.02         3.02         1.41         1.55         7.07 
TCGA-55-8301 TCGA-55-8505 TCGA-55-8510 TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 
        1.41         0.95         7.46         0.10         4.80         1.61 
TCGA-55-8621 TCGA-55-A48X TCGA-55-A493 TCGA-64-1679 TCGA-64-5781 TCGA-64-5815 
        3.45         1.08         0.92        55.40        51.25        28.44 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7761 TCGA-69-8254 TCGA-69-8255 TCGA-78-7160 
        4.60        13.87         6.12         2.50         4.21        22.29 
TCGA-78-7163 TCGA-78-8648 TCGA-86-7711 TCGA-86-7953 TCGA-86-8055 TCGA-86-8076 
      223.96        39.72        20.71        19.43         0.33        10.92 
TCGA-86-8280 TCGA-86-8585 TCGA-86-8668 TCGA-86-8671 TCGA-86-A4P7 TCGA-86-A4P8 
        0.53         1.12         1.45         0.56         0.43         1.28 
TCGA-91-6830 TCGA-91-6835 TCGA-91-6848 TCGA-91-8496 TCGA-91-8497 TCGA-91-A4BC 
        1.97         2.60         7.36         6.44         5.69         1.45 
TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 TCGA-95-7944 TCGA-97-7546 TCGA-97-7552 
        7.17         9.76         4.18         0.69        31.66        63.52 
TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 TCGA-97-8174 TCGA-97-8177 TCGA-97-A4M2 
       43.76         0.59         0.72         5.36         4.80         6.48 
TCGA-99-7458 TCGA-99-8028 TCGA-99-8033 TCGA-J2-8192 TCGA-J2-A4AG TCGA-L4-A4E6 
       12.89        15.06         5.56         5.03         7.82         2.50 
TCGA-MP-A4T2 TCGA-MP-A4T4 TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TA TCGA-MP-A4TH 
       37.35        86.04         5.49        41.59        31.20         4.67 
TCGA-MP-A4TI TCGA-MP-A4TJ 
       14.10        11.15 

subtype1 subtype2 subtype3 
    0.03     0.10     0.07 
subtype1 subtype2 subtype3 
  208.60   163.10   223.96 
subtype1 subtype2 subtype3 
  12.360   11.180    7.955 
[1] "0.0 - 208.6 (12.4)" "0.1 - 163.1 (11.2)" "0.1 - 224.0 (8.0)" 
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
  [7] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [61] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[151] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[217] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[241] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[271] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[283] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[289] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[295] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[307] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[313] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[319] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[325] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[337] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[349] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[355] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[361] "subtype3" "subtype2" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
  [7] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [61] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[151] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[217] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[241] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[271] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[283] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[289] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[295] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[307] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[313] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[319] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[325] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[337] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[349] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[355] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[361] "subtype3" "subtype2" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
  [7] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [61] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[151] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[199] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[217] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[229] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[241] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[271] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[283] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[289] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[295] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[307] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[313] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[319] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[325] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[337] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[349] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[355] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[361] "subtype3" "subtype2" "subtype1"
D4V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       2       33       34        12        19         21          5
  subtype2       1       20       47        13        23         17          3
  subtype3       0       45       34        16        13         19          1
          vv
clus       STAGE IV
  subtype1        7
  subtype2        5
  subtype3        5
D4V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 39 75 13  5
  subtype2 29 78 15  7
  subtype3 57 66  6  3
D4V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 85 22    25
  subtype2 85 27    16
  subtype3 85 23    19
D4V5, multiclass
          vv
clus       M0 M1 M1A M1B MX
  subtype1 93  5   1   2 32
  subtype2 85  4   0   0 38
  subtype3 81  3   0   1 47
D4V6, multiclass
D4V7, binary
          cls
clus        0  1
  subtype1 57 76
  subtype2 67 62
  subtype3 88 46
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   57   76
  subtype2   67   62
  subtype3   88   46
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       57       67       88
  MALE         76       62       46
D4V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          8                                32
  subtype2                          2                                30
  subtype3                          3                                15
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 76
  subtype2                                                 86
  subtype3                                                 89
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          1
  subtype3                                          3
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             4
  subtype2                                             5
  subtype3                                             8
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  0
  subtype2                              0                                  1
  subtype3                              1                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             9
  subtype2                            0                             3
  subtype3                            2                             5
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               0
  subtype2                               0
  subtype3                               1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             1
  subtype3                                             2
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            3
  subtype2                            0
  subtype3                            4
D4V9, multiclass
D4V10, binary
          cls
clus         0   1
  subtype1   6 127
  subtype2   3 126
  subtype3   9 125
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  127
  subtype2    3  126
  subtype3    9  125
     clus
vv    subtype1 subtype2 subtype3
  NO         6        3        9
  YES      127      126      125
D4V11, continuous
D4V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 88  1  0  5
  subtype2 90  5  0  5
  subtype3 83  2  1  5
D4V13, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 53 29
  subtype2 47 17
  subtype3 43 28
subtype1 subtype2 subtype3 
      82       64       71 
subtype1 subtype2 subtype3 
      29       17       28 
$subtype1
TCGA-05-4250 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 
        3.98         9.96        24.03        47.05         8.02        20.05 
TCGA-05-4417 TCGA-05-4422 TCGA-05-4430 TCGA-05-4434 TCGA-05-5423 TCGA-05-5429 
       14.93        12.00        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 
       14.73        46.98        24.36        41.13        42.77        34.06 
TCGA-44-3919 TCGA-44-5645 TCGA-44-6144 TCGA-44-6146 TCGA-44-6147 TCGA-44-6775 
        6.21        12.59        23.77         9.93        27.78        23.18 
TCGA-44-6776 TCGA-44-6777 TCGA-49-4488 TCGA-49-4494 TCGA-49-4501 TCGA-49-4505 
       63.72        32.45        28.57        35.54        46.72        14.07 
TCGA-49-4512 TCGA-49-6743 TCGA-49-6745 TCGA-49-6761 TCGA-50-5044 TCGA-50-5045 
        5.16        12.13        17.13        11.64        20.48        71.47 
TCGA-50-5049 TCGA-50-5066 TCGA-50-5068 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 
       70.55        31.04        49.28         8.45        15.12        18.64 
TCGA-50-5942 TCGA-50-5944 TCGA-50-6590 TCGA-50-6593 TCGA-50-6597 TCGA-50-6673 
       29.00        25.12        42.31        11.05        33.37         0.72 
TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-55-5899 TCGA-55-6543 TCGA-55-6712 
       23.05        38.73        45.17         2.86         0.07         0.79 
TCGA-55-6979 TCGA-55-6981 TCGA-55-6982 TCGA-55-7573 TCGA-55-7911 TCGA-64-1676 
        7.76        45.34        32.71         0.13         0.69        56.81 
TCGA-64-1679 TCGA-64-1681 TCGA-64-5778 TCGA-64-5781 TCGA-67-6215 TCGA-67-6216 
       55.40        38.33        42.90        51.25         5.69         4.60 
TCGA-67-6217 TCGA-69-7760 TCGA-71-6725 TCGA-73-4675 TCGA-78-7145 TCGA-78-7535 
       13.87         6.64         2.01         1.32        27.16        31.20 
TCGA-83-5908 TCGA-86-6562 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6835 
       27.06        12.36        10.62        41.33         1.97         2.60 
TCGA-91-6840 TCGA-95-7039 TCGA-95-7567 TCGA-95-7948 
       12.23         1.12         5.36         4.34 

$subtype2
TCGA-05-4249 TCGA-05-4384 TCGA-05-4426 TCGA-05-5420 TCGA-05-5425 TCGA-35-3615 
       50.07        14.01        26.01        15.02        28.96         0.46 
TCGA-38-4626 TCGA-38-4627 TCGA-44-2657 TCGA-44-3396 TCGA-44-3398 TCGA-44-7659 
      120.79        37.71        13.15        37.15        38.24        14.60 
TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-49-4486 TCGA-49-4510 TCGA-49-6742 
       12.03        17.59        23.64        76.21        29.46        15.02 
TCGA-49-6744 TCGA-50-5051 TCGA-50-5932 TCGA-50-7109 TCGA-53-7626 TCGA-53-7813 
       29.26        14.96        35.87         8.38        30.54        13.94 
TCGA-55-6970 TCGA-55-7574 TCGA-55-7728 TCGA-55-7815 TCGA-64-1680 TCGA-69-7761 
       15.25         3.12         0.79         1.78        37.02         6.12 
TCGA-69-7763 TCGA-69-7764 TCGA-73-4658 TCGA-73-4659 TCGA-73-4670 TCGA-73-4676 
       22.68        13.61        52.57        23.38         4.27         5.39 
TCGA-73-7498 TCGA-78-7143 TCGA-78-7147 TCGA-78-7149 TCGA-78-7156 TCGA-78-7158 
       20.42       163.10        19.27        35.93        32.09         5.88 
TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 TCGA-78-7167 TCGA-78-7537 TCGA-78-7539 
        7.04       104.15       223.96        88.11        53.33        10.75 
TCGA-78-7633 TCGA-86-7713 TCGA-91-6849 TCGA-91-7771 TCGA-93-7348 TCGA-95-7043 
       32.68        13.87         1.15        16.18         4.18         0.07 
TCGA-95-7944 TCGA-95-7947 TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 TCGA-97-7554 
        0.69         1.32        31.66        63.52        43.76        25.48 
TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-99-7458 
        5.95         0.59         0.72        12.89 

$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        97.74        28.37         8.09        38.89        23.74 
TCGA-44-5643 TCGA-44-5644 TCGA-44-6145 TCGA-44-6148 TCGA-44-6774 TCGA-44-6778 
       33.30        28.37        10.78        11.90        21.63        36.49 
TCGA-44-6779 TCGA-44-7660 TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 
       16.41        10.68         7.17        18.31        18.87        29.00 
TCGA-49-4487 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-50-5072 TCGA-50-5930 
       28.11        32.84         8.81        55.89         8.05         9.27 
TCGA-50-5931 TCGA-50-5933 TCGA-50-5946 TCGA-50-6591 TCGA-50-6592 TCGA-50-6594 
        8.78        77.88        22.55         3.88        25.51        12.16 
TCGA-50-6595 TCGA-53-7624 TCGA-55-6969 TCGA-55-6971 TCGA-55-6978 TCGA-55-7910 
        6.21        34.26        40.70         0.92         5.46         6.48 
TCGA-64-1677 TCGA-64-1678 TCGA-64-5774 TCGA-64-5779 TCGA-64-5815 TCGA-67-3771 
       20.65        39.09        87.98        28.41        28.44        20.02 
TCGA-69-7765 TCGA-73-7499 TCGA-78-7146 TCGA-78-7148 TCGA-78-7150 TCGA-78-7152 
        5.42        17.06         5.65        20.58        21.86        39.48 
TCGA-78-7153 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 TCGA-78-7160 TCGA-78-7166 
       24.99        19.50        38.50        40.11        22.29         8.48 
TCGA-78-7536 TCGA-78-7540 TCGA-78-7542 TCGA-86-7701 TCGA-86-7711 TCGA-86-7953 
        8.02        28.96        10.55         0.36        20.71        19.43 
TCGA-86-7955 TCGA-91-6831 TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 
       16.70        10.16        13.71        27.68         7.36 

subtype1 subtype2 subtype3 
    0.07     0.07     0.36 
subtype1 subtype2 subtype3 
   71.47   223.96    97.74 
subtype1 subtype2 subtype3 
  17.885   16.885   19.500 
[1] "0.1 - 71.5 (17.9)"  "0.1 - 224.0 (16.9)" "0.4 - 97.7 (19.5)" 
  [1] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[193] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2"
  [1] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[193] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2"
  [1] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[193] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2"
D5V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       26       26         7        13         16          3
  subtype2       1       18       17         7         8         10          3
  subtype3       0       11       26         6         9         16          1
          vv
clus       STAGE IV
  subtype1        4
  subtype2        4
  subtype3        5
D5V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 30 51  9  5
  subtype2 19 41  2  5
  subtype3 14 51  6  3
D5V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 51 24    16
  subtype2 45 11    11
  subtype3 45 11    17
D5V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 73  4 16
  subtype2 47  4 17
  subtype3 55  4 14
D5V6, multiclass
D5V7, binary
          cls
clus        0  1
  subtype1 59 36
  subtype2 36 32
  subtype3 36 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   59   36
  subtype2   36   32
  subtype3   36   38
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       59       36       36
  MALE         36       32       38
D5V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          2                                19
  subtype2                          3                                18
  subtype3                          1                                15
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 65
  subtype2                                                 33
  subtype3                                                 55
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          1
  subtype2                                          1
  subtype3                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             2
  subtype2                                             7
  subtype3                                             0
          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                             1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            1
  subtype2                            2
  subtype3                            0
D5V9, multiclass
D5V10, binary
          cls
clus        0  1
  subtype1  4 91
  subtype2  3 65
  subtype3  9 65
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   91
  subtype2    3   65
  subtype3    9   65
     clus
vv    subtype1 subtype2 subtype3
  NO         4        3        9
  YES       91       65       65
D5V11, continuous
D5V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 57  3  3  6
  subtype2 46  3  0  1
  subtype3 44  1  0  3
D5V13, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 58 36
  subtype2 46 20
  subtype3 39 18
subtype1 subtype2 subtype3 
      94       66       57 
subtype1 subtype2 subtype3 
      36       20       18 
$subtype1
TCGA-05-4250 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4427 
        3.98        24.03        47.05         8.02        20.05        26.01 
TCGA-05-4430 TCGA-05-4434 TCGA-05-5423 TCGA-05-5715 TCGA-35-4122 TCGA-35-4123 
       25.02        15.02         4.96         2.04         7.36         5.95 
TCGA-38-4625 TCGA-38-6178 TCGA-44-2656 TCGA-44-2661 TCGA-44-2664 TCGA-44-2665 
       97.74        14.73        46.98        24.36        41.13        42.77 
TCGA-44-3918 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 TCGA-44-6147 TCGA-44-6148 
       34.06         6.21        23.74        12.59        27.78        11.90 
TCGA-44-6775 TCGA-44-6777 TCGA-44-6779 TCGA-49-4487 TCGA-49-4488 TCGA-49-4501 
       23.18        32.45        16.41        28.11        28.57        46.72 
TCGA-49-4505 TCGA-49-4507 TCGA-49-4512 TCGA-49-6743 TCGA-49-6745 TCGA-49-6761 
       14.07         8.81         5.16        12.13        17.13        11.64 
TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5066 TCGA-50-5068 TCGA-50-5931 
       20.48        71.47        70.55        31.04        49.28         8.78 
TCGA-50-5933 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 
       77.88         8.45        15.12        18.64        29.00        25.12 
TCGA-50-6590 TCGA-50-6591 TCGA-50-6593 TCGA-50-6597 TCGA-50-6673 TCGA-55-1592 
       42.31         3.88        11.05        33.37         0.72        23.05 
TCGA-55-1594 TCGA-55-1596 TCGA-55-6712 TCGA-55-6969 TCGA-55-6978 TCGA-55-6979 
       38.73        45.17         0.79        40.70         5.46         7.76 
TCGA-55-6981 TCGA-55-6982 TCGA-55-7573 TCGA-55-7911 TCGA-64-1676 TCGA-64-1679 
       45.34        32.71         0.13         0.69        56.81        55.40 
TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 TCGA-64-5781 TCGA-64-5815 TCGA-67-6215 
       37.02        38.33        42.90        51.25        28.44         5.69 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7760 TCGA-71-6725 TCGA-78-7145 TCGA-78-7155 
        4.60        13.87         6.64         2.01        27.16        38.50 
TCGA-78-7535 TCGA-78-7536 TCGA-78-7539 TCGA-83-5908 TCGA-86-6562 TCGA-91-6828 
       31.20         8.02        10.75        27.06        12.36        10.62 
TCGA-91-6829 TCGA-91-6830 TCGA-91-6835 TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 
       41.33         1.97         2.60        12.23        27.68         7.36 
TCGA-95-7039 TCGA-95-7043 TCGA-95-7567 TCGA-95-7948 
        1.12         0.07         5.36         4.34 

$subtype2
TCGA-05-4249 TCGA-05-4384 TCGA-05-4396 TCGA-05-4422 TCGA-05-4426 TCGA-05-5420 
       50.07        14.01         9.96        12.00        26.01        15.02 
TCGA-05-5425 TCGA-05-5429 TCGA-35-3615 TCGA-38-4626 TCGA-44-2657 TCGA-44-6146 
       28.96         0.99         0.46       120.79        13.15         9.93 
TCGA-44-6776 TCGA-44-7659 TCGA-44-7660 TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 
       63.72        14.60        10.68        12.03        17.59        23.64 
TCGA-49-4486 TCGA-49-4494 TCGA-49-4510 TCGA-49-6742 TCGA-49-6744 TCGA-50-5051 
       76.21        35.54        29.46        15.02        29.26        14.96 
TCGA-50-5932 TCGA-53-7626 TCGA-55-6543 TCGA-55-6970 TCGA-55-7574 TCGA-55-7728 
       35.87        30.54         0.07        15.25         3.12         0.79 
TCGA-55-7815 TCGA-69-7763 TCGA-69-7764 TCGA-73-4658 TCGA-73-4659 TCGA-73-4675 
        1.78        22.68        13.61        52.57        23.38         1.32 
TCGA-73-4676 TCGA-73-7498 TCGA-73-7499 TCGA-78-7143 TCGA-78-7147 TCGA-78-7148 
        5.39        20.42        17.06       163.10        19.27        20.58 
TCGA-78-7149 TCGA-78-7153 TCGA-78-7156 TCGA-78-7158 TCGA-78-7161 TCGA-78-7162 
       35.93        24.99        32.09         5.88         7.04       104.15 
TCGA-78-7163 TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-86-7713 
      223.96        88.11        53.33        28.96        32.68        13.87 
TCGA-91-6849 TCGA-91-7771 TCGA-93-7348 TCGA-95-7944 TCGA-97-7546 TCGA-97-7552 
        1.15        16.18         4.18         0.69        31.66        63.52 
TCGA-97-7553 TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-99-7458 
       43.76        25.48         5.95         0.59         0.72        12.89 

$subtype3
TCGA-05-4417 TCGA-05-4418 TCGA-05-4420 TCGA-35-5375 TCGA-38-4627 TCGA-38-4629 
       14.93         8.98        29.95         8.68        37.71        28.37 
TCGA-44-2668 TCGA-44-3396 TCGA-44-3398 TCGA-44-3917 TCGA-44-5643 TCGA-44-5644 
        8.09        37.15        38.24        38.89        33.30        28.37 
TCGA-44-6144 TCGA-44-6145 TCGA-44-6774 TCGA-44-6778 TCGA-44-7662 TCGA-44-7667 
       23.77        10.78        21.63        36.49         7.17        18.31 
TCGA-44-7669 TCGA-44-7670 TCGA-49-4506 TCGA-49-4514 TCGA-50-5072 TCGA-50-5930 
       18.87        29.00        32.84        55.89         8.05         9.27 
TCGA-50-5946 TCGA-50-6592 TCGA-50-6594 TCGA-50-6595 TCGA-50-7109 TCGA-53-7624 
       22.55        25.51        12.16         6.21         8.38        34.26 
TCGA-53-7813 TCGA-55-5899 TCGA-55-6971 TCGA-55-7910 TCGA-64-1677 TCGA-64-1678 
       13.94         2.86         0.92         6.48        20.65        39.09 
TCGA-64-5774 TCGA-64-5779 TCGA-67-3771 TCGA-69-7761 TCGA-69-7765 TCGA-73-4670 
       87.98        28.41        20.02         6.12         5.42         4.27 
TCGA-78-7146 TCGA-78-7150 TCGA-78-7152 TCGA-78-7154 TCGA-78-7159 TCGA-78-7160 
        5.65        21.86        39.48        19.50        40.11        22.29 
TCGA-78-7166 TCGA-78-7542 TCGA-86-7701 TCGA-86-7711 TCGA-86-7953 TCGA-86-7955 
        8.48        10.55         0.36        20.71        19.43        16.70 
TCGA-91-6831 TCGA-91-6836 TCGA-95-7947 
       10.16        13.71         1.32 

subtype1 subtype2 subtype3 
    0.07     0.07     0.36 
subtype1 subtype2 subtype3 
   97.74   223.96    87.98 
subtype1 subtype2 subtype3 
  19.345   17.325   19.430 
[1] "0.1 - 97.7 (19.3)"  "0.1 - 224.0 (17.3)" "0.4 - 88.0 (19.4)" 
  [1] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[193] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2"
  [1] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[193] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2"
  [1] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[193] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[205] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2"
D6V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       27       32         9        14         16          3
  subtype2       0       17       20         5        11         12          3
  subtype3       1       11       17         6         5         14          1
          vv
clus       STAGE IV
  subtype1        6
  subtype2        2
  subtype3        5
D6V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 30 66  5  5
  subtype2 17 41  7  5
  subtype3 16 36  5  3
D6V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 60 25    18
  subtype2 45 13    11
  subtype3 36  8    15
D6V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 80  6 19
  subtype2 51  2 17
  subtype3 44  4 11
D6V6, multiclass
D6V7, binary
          cls
clus        0  1
  subtype1 69 38
  subtype2 33 37
  subtype3 29 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   69   38
  subtype2   33   37
  subtype3   29   31
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       69       33       29
  MALE         38       37       31
D6V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          2                                22
  subtype2                          2                                19
  subtype3                          2                                11
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 74
  subtype2                                                 34
  subtype3                                                 45
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          3
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             3
  subtype2                                             5
  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                            1                             3
  subtype3                            0                             1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            1
  subtype2                            2
  subtype3                            0
D6V9, multiclass
D6V10, binary
          cls
clus        0  1
  subtype1  8 99
  subtype2  2 68
  subtype3  6 54
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8   99
  subtype2    2   68
  subtype3    6   54
     clus
vv    subtype1 subtype2 subtype3
  NO         8        2        6
  YES       99       68       54
D6V11, continuous
D6V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 65  3  3  5
  subtype2 47  3  0  2
  subtype3 35  1  0  3
D6V13, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 81 42
  subtype2 76 17
  subtype3 35 30
  subtype4 71 21
  subtype5 35  6
subtype1 subtype2 subtype3 subtype4 subtype5 
     123       93       65       92       41 
subtype1 subtype2 subtype3 subtype4 subtype5 
      42       17       30       21        6 
$subtype1
TCGA-05-4382 TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4426 TCGA-05-4427 
       19.92        47.05         8.02        20.05        26.01        26.01 
TCGA-05-5428 TCGA-35-4123 TCGA-38-4627 TCGA-38-4628 TCGA-38-4629 TCGA-38-4632 
       22.03         5.95        37.71        49.02        28.37        44.61 
TCGA-38-6178 TCGA-44-2656 TCGA-44-2662 TCGA-44-2665 TCGA-44-2668 TCGA-44-3396 
       14.73        46.98        42.08        42.77         8.09        37.15 
TCGA-44-3918 TCGA-44-3919 TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 TCGA-44-7661 
       34.06         6.21        23.74        23.18        32.45        12.03 
TCGA-44-7662 TCGA-44-8117 TCGA-44-A4SU TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 
        7.17        12.66         2.50        28.57        12.66        35.54 
TCGA-49-4505 TCGA-49-4512 TCGA-49-6745 TCGA-49-6761 TCGA-50-5045 TCGA-50-5049 
       14.07         5.16        17.13        11.64        71.47        70.55 
TCGA-50-5066 TCGA-50-5933 TCGA-50-5941 TCGA-50-6590 TCGA-50-6594 TCGA-50-6595 
       31.04        77.88        18.64        42.31        12.16         6.21 
TCGA-55-1595 TCGA-55-6712 TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 
       48.62         0.79         5.46         7.76         2.20        45.34 
TCGA-55-6982 TCGA-55-7281 TCGA-55-7576 TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 
       32.71         0.59         1.32         0.62         0.53         0.69 
TCGA-55-7994 TCGA-55-8096 TCGA-55-8301 TCGA-55-8302 TCGA-55-8506 TCGA-55-8510 
        1.02         1.55         1.41         0.72         0.36         7.46 
TCGA-55-8511 TCGA-55-A48Z TCGA-55-A493 TCGA-62-8394 TCGA-62-A46R TCGA-62-A46U 
        0.30         0.95         0.92         4.54        56.68        67.96 
TCGA-62-A46V TCGA-62-A472 TCGA-64-1676 TCGA-64-1677 TCGA-64-1679 TCGA-64-5775 
       72.30        29.92        56.81        20.65        55.40         2.04 
TCGA-64-5778 TCGA-64-5815 TCGA-69-7760 TCGA-69-7765 TCGA-69-7978 TCGA-69-7979 
       42.90        28.44         6.64         5.42         2.30         2.93 
TCGA-69-7980 TCGA-69-A59K TCGA-71-6725 TCGA-73-4658 TCGA-73-4666 TCGA-73-4668 
       12.56         7.04         2.01        52.57        26.27        15.35 
TCGA-73-4676 TCGA-78-7143 TCGA-78-7145 TCGA-78-7146 TCGA-78-7535 TCGA-78-8655 
        5.39       163.10        27.16         5.65        31.20        77.59 
TCGA-78-8660 TCGA-83-5908 TCGA-86-6562 TCGA-86-7711 TCGA-86-8055 TCGA-86-8074 
       10.55        27.06        12.36        20.71         0.33         0.79 
TCGA-86-8075 TCGA-86-8278 TCGA-86-8279 TCGA-86-8673 TCGA-91-6829 TCGA-91-6836 
       15.75        15.65        15.85        14.93        41.33        13.71 
TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-95-7948 TCGA-97-7554 TCGA-97-7937 
        7.36         1.12         5.36         4.34        25.48         5.95 
TCGA-99-8028 TCGA-J2-8192 TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N1 
       15.06         5.03         9.44         6.97         0.20         9.37 
TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SY TCGA-MP-A4T4 TCGA-MP-A4T9 
       20.42        11.61        86.14        49.35        86.04        41.59 
TCGA-MP-A4TC TCGA-MP-A4TI TCGA-MP-A4TK 
        2.43        14.10        19.13 

$subtype2
TCGA-05-4249 TCGA-05-4384 TCGA-05-4425 TCGA-05-5423 TCGA-05-5715 TCGA-35-3615 
       50.07        14.01        21.99         4.96         2.04         0.46 
TCGA-38-4626 TCGA-38-7271 TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 
      120.79        26.30        43.50        13.15        44.94        24.36 
TCGA-44-2666 TCGA-44-3398 TCGA-44-6776 TCGA-44-8120 TCGA-44-A47A TCGA-49-4486 
        3.19        38.24        63.72         8.55        15.32        76.21 
TCGA-49-4501 TCGA-49-6744 TCGA-50-5932 TCGA-50-5935 TCGA-50-5942 TCGA-50-5944 
       46.72        29.26        35.87        21.47        29.00        25.12 
TCGA-50-6597 TCGA-53-7626 TCGA-55-6543 TCGA-55-6986 TCGA-55-7227 TCGA-55-7283 
       33.37        30.54         0.07        71.05         2.01         1.12 
TCGA-55-7574 TCGA-55-7725 TCGA-55-7727 TCGA-55-7914 TCGA-55-8087 TCGA-55-8090 
        3.12         1.28         1.02         0.10         0.69         0.20 
TCGA-55-8097 TCGA-55-8206 TCGA-55-8207 TCGA-55-8514 TCGA-55-A492 TCGA-55-A4DG 
        0.49         1.51         2.17         6.97         0.03         5.29 
TCGA-62-8395 TCGA-62-8397 TCGA-62-8399 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 
       39.95        42.38        77.10         0.99        18.84        14.04 
TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7763 TCGA-69-7764 
       12.66         5.69         4.60        13.87        22.68        13.61 
TCGA-69-8253 TCGA-73-4662 TCGA-73-4677 TCGA-73-7498 TCGA-78-7152 TCGA-78-7156 
        3.25        29.95         1.25        20.42        39.48        32.09 
TCGA-78-7158 TCGA-78-7162 TCGA-78-7537 TCGA-78-7539 TCGA-78-7633 TCGA-78-8648 
        5.88       104.15        53.33        10.75        32.68        39.72 
TCGA-86-8073 TCGA-86-8668 TCGA-86-8671 TCGA-86-A456 TCGA-86-A4P7 TCGA-86-A4P8 
        0.43         1.45         0.56         0.33         0.43         1.28 
TCGA-91-6849 TCGA-91-8496 TCGA-91-8497 TCGA-91-A4BD TCGA-93-7347 TCGA-97-7546 
        1.15         6.44         5.69         7.17         9.76        31.66 
TCGA-97-7547 TCGA-97-7553 TCGA-97-7938 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 
       64.60        43.76         0.59         5.95         5.36         4.80 
TCGA-97-8179 TCGA-97-A4M2 TCGA-99-7458 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
        0.49         6.48        12.89         9.27         7.82         2.50 
TCGA-MP-A4SW TCGA-MP-A4T6 TCGA-MP-A4TH 
       58.45        58.85         4.67 

$subtype3
TCGA-05-4250 TCGA-05-4403 TCGA-05-4415 TCGA-05-4418 TCGA-05-4433 TCGA-05-5420 
        3.98        19.00         2.96         8.98        24.00        15.02 
TCGA-05-5425 TCGA-05-5429 TCGA-35-4122 TCGA-38-4625 TCGA-38-4631 TCGA-44-5643 
       28.96         0.99         7.36        97.74        11.64        33.30 
TCGA-44-6145 TCGA-44-6146 TCGA-44-6779 TCGA-44-A4SS TCGA-49-4506 TCGA-49-4507 
       10.78         9.93        16.41         3.75        32.84         8.81 
TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-50-5044 TCGA-50-5072 TCGA-50-5930 
       55.89        15.02        12.13        20.48         8.05         9.27 
TCGA-50-5936 TCGA-50-5939 TCGA-50-6592 TCGA-50-6673 TCGA-53-7624 TCGA-55-6970 
        8.45        15.12        25.51         0.72        34.26        15.25 
TCGA-55-6975 TCGA-55-6984 TCGA-55-6987 TCGA-55-7726 TCGA-55-7728 TCGA-55-8089 
        3.88        24.99        38.47         1.02         0.79         3.02 
TCGA-55-8092 TCGA-55-8299 TCGA-55-8505 TCGA-55-8619 TCGA-62-8398 TCGA-62-A46O 
        0.85         7.07         0.95         1.61        14.60        47.77 
TCGA-62-A471 TCGA-64-5781 TCGA-69-7761 TCGA-73-4670 TCGA-78-7148 TCGA-78-7150 
       40.93        51.25         6.12         4.27        20.58        21.86 
TCGA-78-7154 TCGA-78-7160 TCGA-78-7166 TCGA-78-7220 TCGA-78-7540 TCGA-78-7542 
       19.50        22.29         8.48        26.53        28.96        10.55 
TCGA-86-8585 TCGA-86-8672 TCGA-91-6830 TCGA-93-8067 TCGA-95-7944 TCGA-95-A4VK 
        1.12         0.49         1.97         6.08         0.69         4.04 
TCGA-97-8175 TCGA-99-8033 TCGA-MP-A4T7 TCGA-MP-A4TA TCGA-MP-A4TF 
        2.83         5.56         5.49        31.20        11.05 

$subtype4
TCGA-05-4389 TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4417 TCGA-05-4420 
       45.01        37.02         9.96        24.03        14.93        29.95 
TCGA-05-4422 TCGA-05-4424 TCGA-05-4432 TCGA-35-5375 TCGA-38-4630 TCGA-44-5644 
       12.00        30.02        25.02         8.68        35.28        28.37 
TCGA-44-6774 TCGA-44-6778 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 TCGA-44-8119 
       21.63        36.49        10.68        18.31        18.87         3.22 
TCGA-44-A479 TCGA-44-A47B TCGA-49-4487 TCGA-49-4510 TCGA-50-5051 TCGA-50-5931 
       15.95         9.44        28.11        29.46        14.96         8.78 
TCGA-50-5946 TCGA-50-6591 TCGA-50-7109 TCGA-53-7813 TCGA-53-A4EZ TCGA-55-1592 
       22.55         3.88         8.38        13.94         9.21        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-55-6971 TCGA-55-6972 TCGA-55-7815 TCGA-55-7910 TCGA-55-7995 TCGA-55-8085 
        0.92        48.49         1.78         6.48         0.16         1.08 
TCGA-55-8094 TCGA-55-8615 TCGA-55-8620 TCGA-55-A494 TCGA-55-A4DF TCGA-62-8402 
        0.13         0.49         2.14         0.16         1.55        47.47 
TCGA-62-A46P TCGA-62-A46S TCGA-62-A470 TCGA-64-1678 TCGA-64-5774 TCGA-64-5779 
       19.53        54.35        39.22        39.09        87.98        28.41 
TCGA-67-3771 TCGA-69-7973 TCGA-69-8255 TCGA-73-4659 TCGA-78-7149 TCGA-78-7153 
       20.02         7.56         4.21        23.38        35.93        24.99 
TCGA-78-7155 TCGA-78-7159 TCGA-78-7161 TCGA-78-7163 TCGA-78-7167 TCGA-78-7536 
       38.50        40.11         7.04       223.96        88.11         8.02 
TCGA-78-8640 TCGA-78-8662 TCGA-86-7701 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 
      208.60       110.50         0.36        13.87        19.43        16.70 
TCGA-86-8054 TCGA-86-8358 TCGA-86-8359 TCGA-86-8669 TCGA-86-8674 TCGA-86-A4D0 
       24.49         0.62         0.85         1.08        13.28         0.99 
TCGA-91-6828 TCGA-91-6831 TCGA-91-6840 TCGA-91-6847 TCGA-91-7771 TCGA-91-8499 
       10.62        10.16        12.23        27.68        16.18         1.18 
TCGA-91-A4BC TCGA-95-7043 TCGA-97-8171 TCGA-99-8032 TCGA-J2-8194 TCGA-MP-A4T8 
        1.45         0.07         3.48         1.45         3.72         5.29 
TCGA-MP-A4TD TCGA-MP-A5C7 
       10.09        48.99 

$subtype5
TCGA-05-4430 TCGA-05-4434 TCGA-38-A44F TCGA-44-5645 TCGA-44-6147 TCGA-44-6148 
       25.02        15.02         4.37        12.59        27.78        11.90 
TCGA-44-7659 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-44-A47G TCGA-50-5055 
       14.60        29.00        17.59        23.64         4.44        25.81 
TCGA-50-5068 TCGA-50-6593 TCGA-55-6983 TCGA-55-6985 TCGA-55-7573 TCGA-55-8091 
       49.28        11.05        60.03        40.54         0.13         1.41 
TCGA-55-8512 TCGA-55-8513 TCGA-55-8616 TCGA-55-8621 TCGA-55-A48X TCGA-64-1680 
        0.10         4.80         1.58         3.45         1.08        37.02 
TCGA-64-1681 TCGA-69-7974 TCGA-69-8254 TCGA-73-4675 TCGA-73-7499 TCGA-78-7147 
       38.33         6.05         2.50         1.32        17.06        19.27 
TCGA-86-8076 TCGA-86-8280 TCGA-91-6835 TCGA-93-7348 TCGA-95-7947 TCGA-97-7552 
       10.92         0.53         2.60         4.18         1.32        63.52 
TCGA-97-7941 TCGA-97-A4M7 TCGA-99-8025 TCGA-L9-A443 TCGA-MP-A4TJ 
        0.72         8.91        14.04         3.81        11.15 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.20     0.03     0.49     0.07     0.10 
subtype1 subtype2 subtype3 subtype4 subtype5 
  163.10   120.79    97.74   223.96    63.52 
subtype1 subtype2 subtype3 subtype4 subtype5 
  14.730    9.760   10.550   15.455   11.050 
[1] "0.2 - 163.1 (14.7)" "0.0 - 120.8 (9.8)"  "0.5 - 97.7 (10.6)" 
[4] "0.1 - 224.0 (15.5)" "0.1 - 63.5 (11.1)" 
  [1] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
 [19] "subtype2" "subtype1" "subtype1" "subtype5" "subtype4" "subtype3"
 [25] "subtype5" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
 [37] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype5" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [61] "subtype3" "subtype4" "subtype5" "subtype3" "subtype3" "subtype5"
 [67] "subtype5" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [73] "subtype3" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
 [79] "subtype4" "subtype5" "subtype5" "subtype5" "subtype1" "subtype4"
 [85] "subtype2" "subtype4" "subtype2" "subtype4" "subtype5" "subtype3"
 [91] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype3" "subtype1" "subtype1" "subtype4" "subtype5" "subtype1"
[115] "subtype5" "subtype3" "subtype3" "subtype4" "subtype2" "subtype1"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype4" "subtype1" "subtype4" "subtype3" "subtype5" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype4" "subtype3" "subtype2"
[139] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[145] "subtype4" "subtype2" "subtype4" "subtype1" "subtype4" "subtype4"
[151] "subtype3" "subtype4" "subtype4" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype1" "subtype5" "subtype3" "subtype5"
[163] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype5"
[169] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype4" "subtype1" "subtype1" "subtype4" "subtype1" "subtype2"
[181] "subtype1" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[187] "subtype5" "subtype3" "subtype4" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype5" "subtype5" "subtype2" "subtype4"
[205] "subtype5" "subtype3" "subtype4" "subtype5" "subtype5" "subtype1"
[211] "subtype2" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype2" "subtype4" "subtype3"
[223] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
[229] "subtype3" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[235] "subtype5" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
[241] "subtype3" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[253] "subtype2" "subtype2" "subtype1" "subtype4" "subtype5" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype5" "subtype4" "subtype1"
[265] "subtype1" "subtype1" "subtype4" "subtype2" "subtype1" "subtype1"
[271] "subtype3" "subtype5" "subtype1" "subtype2" "subtype2" "subtype5"
[277] "subtype1" "subtype1" "subtype1" "subtype5" "subtype3" "subtype4"
[283] "subtype3" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[289] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype4"
[295] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype2"
[301] "subtype2" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[307] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
[313] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[319] "subtype2" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[325] "subtype5" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[331] "subtype2" "subtype3" "subtype1" "subtype4" "subtype2" "subtype4"
[337] "subtype2" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
[343] "subtype5" "subtype1" "subtype4" "subtype4" "subtype1" "subtype2"
[349] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype2"
[355] "subtype2" "subtype5" "subtype3" "subtype1" "subtype4" "subtype1"
[361] "subtype3" "subtype5" "subtype1" "subtype3" "subtype2" "subtype2"
[367] "subtype5" "subtype2" "subtype1" "subtype1" "subtype2" "subtype5"
[373] "subtype4" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[379] "subtype2" "subtype5" "subtype2" "subtype5" "subtype1" "subtype4"
[385] "subtype3" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
[391] "subtype1" "subtype2" "subtype5" "subtype1" "subtype1" "subtype1"
[397] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[403] "subtype3" "subtype4" "subtype1" "subtype3" "subtype1" "subtype4"
[409] "subtype3" "subtype2" "subtype1" "subtype5" "subtype1" "subtype4"
  [1] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
 [19] "subtype2" "subtype1" "subtype1" "subtype5" "subtype4" "subtype3"
 [25] "subtype5" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
 [37] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype5" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [61] "subtype3" "subtype4" "subtype5" "subtype3" "subtype3" "subtype5"
 [67] "subtype5" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [73] "subtype3" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
 [79] "subtype4" "subtype5" "subtype5" "subtype5" "subtype1" "subtype4"
 [85] "subtype2" "subtype4" "subtype2" "subtype4" "subtype5" "subtype3"
 [91] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype3" "subtype1" "subtype1" "subtype4" "subtype5" "subtype1"
[115] "subtype5" "subtype3" "subtype3" "subtype4" "subtype2" "subtype1"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype4" "subtype1" "subtype4" "subtype3" "subtype5" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype4" "subtype3" "subtype2"
[139] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[145] "subtype4" "subtype2" "subtype4" "subtype1" "subtype4" "subtype4"
[151] "subtype3" "subtype4" "subtype4" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype1" "subtype5" "subtype3" "subtype5"
[163] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype5"
[169] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype4" "subtype1" "subtype1" "subtype4" "subtype1" "subtype2"
[181] "subtype1" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[187] "subtype5" "subtype3" "subtype4" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype5" "subtype5" "subtype2" "subtype4"
[205] "subtype5" "subtype3" "subtype4" "subtype5" "subtype5" "subtype1"
[211] "subtype2" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype2" "subtype4" "subtype3"
[223] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
[229] "subtype3" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[235] "subtype5" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
[241] "subtype3" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[253] "subtype2" "subtype2" "subtype1" "subtype4" "subtype5" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype5" "subtype4" "subtype1"
[265] "subtype1" "subtype1" "subtype4" "subtype2" "subtype1" "subtype1"
[271] "subtype3" "subtype5" "subtype1" "subtype2" "subtype2" "subtype5"
[277] "subtype1" "subtype1" "subtype1" "subtype5" "subtype3" "subtype4"
[283] "subtype3" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[289] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype4"
[295] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype2"
[301] "subtype2" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[307] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
[313] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[319] "subtype2" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[325] "subtype5" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[331] "subtype2" "subtype3" "subtype1" "subtype4" "subtype2" "subtype4"
[337] "subtype2" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
[343] "subtype5" "subtype1" "subtype4" "subtype4" "subtype1" "subtype2"
[349] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype2"
[355] "subtype2" "subtype5" "subtype3" "subtype1" "subtype4" "subtype1"
[361] "subtype3" "subtype5" "subtype1" "subtype3" "subtype2" "subtype2"
[367] "subtype5" "subtype2" "subtype1" "subtype1" "subtype2" "subtype5"
[373] "subtype4" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[379] "subtype2" "subtype5" "subtype2" "subtype5" "subtype1" "subtype4"
[385] "subtype3" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
[391] "subtype1" "subtype2" "subtype5" "subtype1" "subtype1" "subtype1"
[397] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[403] "subtype3" "subtype4" "subtype1" "subtype3" "subtype1" "subtype4"
[409] "subtype3" "subtype2" "subtype1" "subtype5" "subtype1" "subtype4"
  [1] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
 [19] "subtype2" "subtype1" "subtype1" "subtype5" "subtype4" "subtype3"
 [25] "subtype5" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype2" "subtype2" "subtype3" "subtype1" "subtype4" "subtype3"
 [37] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype5" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [61] "subtype3" "subtype4" "subtype5" "subtype3" "subtype3" "subtype5"
 [67] "subtype5" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [73] "subtype3" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
 [79] "subtype4" "subtype5" "subtype5" "subtype5" "subtype1" "subtype4"
 [85] "subtype2" "subtype4" "subtype2" "subtype4" "subtype5" "subtype3"
 [91] "subtype1" "subtype2" "subtype4" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype3" "subtype1" "subtype1" "subtype4" "subtype5" "subtype1"
[115] "subtype5" "subtype3" "subtype3" "subtype4" "subtype2" "subtype1"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype4" "subtype1" "subtype4" "subtype3" "subtype5" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype4" "subtype3" "subtype2"
[139] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[145] "subtype4" "subtype2" "subtype4" "subtype1" "subtype4" "subtype4"
[151] "subtype3" "subtype4" "subtype4" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype1" "subtype5" "subtype3" "subtype5"
[163] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype5"
[169] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype4" "subtype1" "subtype1" "subtype4" "subtype1" "subtype2"
[181] "subtype1" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[187] "subtype5" "subtype3" "subtype4" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype5" "subtype5" "subtype2" "subtype4"
[205] "subtype5" "subtype3" "subtype4" "subtype5" "subtype5" "subtype1"
[211] "subtype2" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype2" "subtype4" "subtype3"
[223] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
[229] "subtype3" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[235] "subtype5" "subtype5" "subtype4" "subtype1" "subtype1" "subtype4"
[241] "subtype3" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[253] "subtype2" "subtype2" "subtype1" "subtype4" "subtype5" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype5" "subtype4" "subtype1"
[265] "subtype1" "subtype1" "subtype4" "subtype2" "subtype1" "subtype1"
[271] "subtype3" "subtype5" "subtype1" "subtype2" "subtype2" "subtype5"
[277] "subtype1" "subtype1" "subtype1" "subtype5" "subtype3" "subtype4"
[283] "subtype3" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[289] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype4"
[295] "subtype3" "subtype4" "subtype3" "subtype1" "subtype4" "subtype2"
[301] "subtype2" "subtype3" "subtype3" "subtype2" "subtype4" "subtype2"
[307] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
[313] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
[319] "subtype2" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[325] "subtype5" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[331] "subtype2" "subtype3" "subtype1" "subtype4" "subtype2" "subtype4"
[337] "subtype2" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
[343] "subtype5" "subtype1" "subtype4" "subtype4" "subtype1" "subtype2"
[349] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype2"
[355] "subtype2" "subtype5" "subtype3" "subtype1" "subtype4" "subtype1"
[361] "subtype3" "subtype5" "subtype1" "subtype3" "subtype2" "subtype2"
[367] "subtype5" "subtype2" "subtype1" "subtype1" "subtype2" "subtype5"
[373] "subtype4" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[379] "subtype2" "subtype5" "subtype2" "subtype5" "subtype1" "subtype4"
[385] "subtype3" "subtype1" "subtype4" "subtype1" "subtype2" "subtype2"
[391] "subtype1" "subtype2" "subtype5" "subtype1" "subtype1" "subtype1"
[397] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[403] "subtype3" "subtype4" "subtype1" "subtype3" "subtype1" "subtype4"
[409] "subtype3" "subtype2" "subtype1" "subtype5" "subtype1" "subtype4"
D7V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       2       21       39        16        24         20          4
  subtype2       0       39       29         9         9         12          1
  subtype3       0       11       17         2        15         17          3
  subtype4       1       23       35        10        11         12          3
  subtype5       0       17       11         4         5          5          0
          vv
clus       STAGE IV
  subtype1        6
  subtype2        2
  subtype3        5
  subtype4        6
  subtype5        3
D7V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 31 83 12  6
  subtype2 46 45  6  4
  subtype3 14 42  9  4
  subtype4 26 63  8  3
  subtype5 22 18  5  1
D7V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 72 34    24
  subtype2 74 14    10
  subtype3 36 15    18
  subtype4 74 13    13
  subtype5 29  9     5
D7V5, multiclass
          vv
clus       M0 M1 M1A M1B MX
  subtype1 91  5   0   0 35
  subtype2 70  2   0   0 29
  subtype3 52  5   0   0 13
  subtype4 69  4   1   2 24
  subtype5 28  2   0   1 13
D7V6, multiclass
D7V7, binary
          cls
clus        0  1
  subtype1 76 56
  subtype2 67 34
  subtype3 34 36
  subtype4 38 63
  subtype5 29 17
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   76   56
  subtype2   67   34
  subtype3   34   36
  subtype4   38   63
  subtype5   29   17
D7V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          2                                23
  subtype2                          5                                22
  subtype3                          1                                15
  subtype4                          4                                19
  subtype5                          1                                13
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 97
  subtype2                                                 58
  subtype3                                                 43
  subtype4                                                 66
  subtype5                                                 23
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          2
  subtype3                                          1
  subtype4                                          0
  subtype5                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             5
  subtype2                                             8
  subtype3                                             0
  subtype4                                             2
  subtype5                                             2
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  2
  subtype2                              0                                  1
  subtype3                              1                                  0
  subtype4                              0                                  0
  subtype5                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             2
  subtype2                            0                             5
  subtype3                            1                             2
  subtype4                            0                             7
  subtype5                            1                             2
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               0
  subtype2                               0
  subtype3                               0
  subtype4                               0
  subtype5                               1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             2
  subtype4                                             2
  subtype5                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            0
  subtype3                            4
  subtype4                            1
  subtype5                            2
D7V9, multiclass
D7V10, binary
          cls
clus         0   1
  subtype1   6 126
  subtype2   4  97
  subtype3   6  64
  subtype4   3  98
  subtype5   2  44
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  126
  subtype2    4   97
  subtype3    6   64
  subtype4    3   98
  subtype5    2   44
D7V11, continuous
D7V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 89  3  1  5
  subtype2 72  3  0  3
  subtype3 47  1  1  1
  subtype4 71  3  0  4
  subtype5 30  0  2  3
D7V13, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1  74  34
  subtype2 133  38
  subtype3  91  44
subtype1 subtype2 subtype3 
     108      171      135 
subtype1 subtype2 subtype3 
      34       38       44 
$subtype1
TCGA-05-4250 TCGA-05-4398 TCGA-05-4405 TCGA-05-4426 TCGA-05-4427 TCGA-05-5428 
        3.98        47.05        20.05        26.01        26.01        22.03 
TCGA-35-4122 TCGA-35-4123 TCGA-38-4625 TCGA-38-4628 TCGA-38-4629 TCGA-38-4632 
        7.36         5.95        97.74        49.02        28.37        44.61 
TCGA-38-6178 TCGA-44-2656 TCGA-44-2662 TCGA-44-2665 TCGA-44-2668 TCGA-44-3396 
       14.73        46.98        42.08        42.77         8.09        37.15 
TCGA-44-3398 TCGA-44-3918 TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 TCGA-44-7661 
       38.24        34.06        23.74        23.18        32.45        12.03 
TCGA-44-7662 TCGA-44-8117 TCGA-44-A47B TCGA-44-A4SU TCGA-49-4488 TCGA-49-4490 
        7.17        12.66         9.44         2.50        28.57        12.66 
TCGA-49-4494 TCGA-49-4505 TCGA-49-6745 TCGA-49-6761 TCGA-50-5044 TCGA-50-5066 
       35.54        14.07        17.13        11.64        20.48        31.04 
TCGA-50-5933 TCGA-50-5941 TCGA-50-6590 TCGA-50-6594 TCGA-50-6595 TCGA-55-1595 
       77.88        18.64        42.31        12.16         6.21        48.62 
TCGA-55-6712 TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-7576 
        0.79         5.46         7.76         2.20        45.34         1.32 
TCGA-55-7727 TCGA-55-7903 TCGA-55-7911 TCGA-55-7994 TCGA-55-8090 TCGA-55-8096 
        1.02         0.62         0.69         1.02         0.20         1.55 
TCGA-55-8301 TCGA-55-8302 TCGA-55-8506 TCGA-55-8510 TCGA-55-8514 TCGA-55-A48Z 
        1.41         0.72         0.36         7.46         6.97         0.95 
TCGA-55-A493 TCGA-55-A4DG TCGA-62-8394 TCGA-62-A472 TCGA-64-1676 TCGA-64-1679 
        0.92         5.29         4.54        29.92        56.81        55.40 
TCGA-64-5815 TCGA-69-7760 TCGA-69-7765 TCGA-69-7978 TCGA-69-A59K TCGA-71-6725 
       28.44         6.64         5.42         2.30         7.04         2.01 
TCGA-73-4658 TCGA-73-4662 TCGA-73-4666 TCGA-73-4668 TCGA-73-4676 TCGA-78-7145 
       52.57        29.95        26.27        15.35         5.39        27.16 
TCGA-78-7146 TCGA-78-7535 TCGA-78-7542 TCGA-78-8655 TCGA-78-8660 TCGA-83-5908 
        5.65        31.20        10.55        77.59        10.55        27.06 
TCGA-86-6562 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 TCGA-86-8278 TCGA-86-8279 
       12.36         0.33         0.79        15.75        15.65        15.85 
TCGA-86-8673 TCGA-91-6836 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 
       14.93        13.71         1.12         5.36        25.48         5.95 
TCGA-97-8175 TCGA-J2-8192 TCGA-J2-A4AG TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N5 
        2.83         5.03         7.82         6.97         0.20        11.61 
TCGA-MP-A4SV TCGA-MP-A4SW TCGA-MP-A4T9 TCGA-MP-A4TC TCGA-MP-A4TI TCGA-MP-A4TK 
       86.14        58.45        41.59         2.43        14.10        19.13 

$subtype2
TCGA-05-4249 TCGA-05-4384 TCGA-05-4396 TCGA-05-4403 TCGA-05-4422 TCGA-05-4425 
       50.07        14.01         9.96        19.00        12.00        21.99 
TCGA-05-4430 TCGA-05-4433 TCGA-05-5423 TCGA-05-5429 TCGA-05-5715 TCGA-35-3615 
       25.02        24.00         4.96         0.99         2.04         0.46 
TCGA-38-4626 TCGA-38-4627 TCGA-38-7271 TCGA-38-A44F TCGA-44-2655 TCGA-44-2657 
      120.79        37.71        26.30         4.37        43.50        13.15 
TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 TCGA-44-3919 TCGA-44-5645 TCGA-44-6146 
       44.94        24.36         3.19         6.21        12.59         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-7659 TCGA-44-7670 TCGA-44-7671 
       27.78        11.90        63.72        14.60        29.00        17.59 
TCGA-44-7672 TCGA-44-A47A TCGA-44-A47G TCGA-49-4486 TCGA-49-4487 TCGA-49-4501 
       23.64        15.32         4.44        76.21        28.11        46.72 
TCGA-49-4510 TCGA-49-4512 TCGA-49-6744 TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 
       29.46         5.16        29.26        71.47        70.55        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        29.00        25.12        11.05 
TCGA-50-6597 TCGA-50-6673 TCGA-53-7626 TCGA-55-6543 TCGA-55-6971 TCGA-55-6972 
       33.37         0.72        30.54         0.07         0.92        48.49 
TCGA-55-6982 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 TCGA-55-6987 
       32.71        60.03        24.99        40.54        71.05        38.47 
TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7725 
        2.01         0.59         1.12         0.13         3.12         1.28 
TCGA-55-7728 TCGA-55-7907 TCGA-55-7914 TCGA-55-8085 TCGA-55-8087 TCGA-55-8091 
        0.79         0.53         0.10         1.08         0.69         1.41 
TCGA-55-8097 TCGA-55-8206 TCGA-55-8207 TCGA-55-8299 TCGA-55-8511 TCGA-55-8512 
        0.49         1.51         2.17         7.07         0.30         0.10 
TCGA-55-8513 TCGA-55-8616 TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X TCGA-55-A492 
        4.80         1.58         1.61         3.45         1.08         0.03 
TCGA-62-8395 TCGA-62-8397 TCGA-62-A46R TCGA-62-A46S TCGA-62-A46U TCGA-62-A46V 
       39.95        42.38        56.68        54.35        67.96        72.30 
TCGA-62-A470 TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 TCGA-67-3770 TCGA-67-3772 
       39.22        37.02        38.33        42.90         0.99        18.84 
TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7761 
       14.04        12.66         5.69         4.60        13.87         6.12 
TCGA-69-7763 TCGA-69-7764 TCGA-69-7974 TCGA-69-7979 TCGA-69-8253 TCGA-69-8254 
       22.68        13.61         6.05         2.93         3.25         2.50 
TCGA-73-4675 TCGA-73-4677 TCGA-73-7498 TCGA-73-7499 TCGA-78-7143 TCGA-78-7147 
        1.32         1.25        20.42        17.06       163.10        19.27 
TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 TCGA-78-7156 TCGA-78-7158 TCGA-78-7162 
       35.93        39.48        24.99        32.09         5.88       104.15 
TCGA-78-7163 TCGA-78-7167 TCGA-78-7537 TCGA-78-7539 TCGA-78-7540 TCGA-78-7633 
      223.96        88.11        53.33        10.75        28.96        32.68 
TCGA-78-8648 TCGA-86-8076 TCGA-86-8280 TCGA-86-8668 TCGA-86-8671 TCGA-86-8674 
       39.72        10.92         0.53         1.45         0.56        13.28 
TCGA-86-A456 TCGA-86-A4P7 TCGA-86-A4P8 TCGA-91-6835 TCGA-91-6849 TCGA-91-7771 
        0.33         0.43         1.28         2.60         1.15        16.18 
TCGA-91-8496 TCGA-91-8497 TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 TCGA-95-7947 
        6.44         5.69         7.17         9.76         4.18         1.32 
TCGA-95-7948 TCGA-97-7546 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 
        4.34        31.66        64.60        63.52        43.76         0.59 
TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 TCGA-97-8179 
        0.72         3.48         5.95         5.36         4.80         0.49 
TCGA-97-A4M2 TCGA-97-A4M7 TCGA-99-7458 TCGA-99-8025 TCGA-99-8028 TCGA-J2-8194 
        6.48         8.91        12.89        14.04        15.06         3.72 
TCGA-J2-A4AE TCGA-L4-A4E6 TCGA-L9-A443 TCGA-MP-A4SY TCGA-MP-A4T4 TCGA-MP-A4T6 
        9.27         2.50         3.81        49.35        86.04        58.85 
TCGA-MP-A4TH TCGA-MP-A4TJ TCGA-MP-A5C7 
        4.67        11.15        48.99 

$subtype3
TCGA-05-4382 TCGA-05-4389 TCGA-05-4390 TCGA-05-4397 TCGA-05-4402 TCGA-05-4415 
       19.92        45.01        37.02        24.03         8.02         2.96 
TCGA-05-4417 TCGA-05-4418 TCGA-05-4420 TCGA-05-4424 TCGA-05-4432 TCGA-05-4434 
       14.93         8.98        29.95        30.02        25.02        15.02 
TCGA-05-5420 TCGA-05-5425 TCGA-35-5375 TCGA-38-4630 TCGA-38-4631 TCGA-44-5643 
       15.02        28.96         8.68        35.28        11.64        33.30 
TCGA-44-5644 TCGA-44-6145 TCGA-44-6774 TCGA-44-6778 TCGA-44-6779 TCGA-44-7660 
       28.37        10.78        21.63        36.49        16.41        10.68 
TCGA-44-7667 TCGA-44-7669 TCGA-44-8119 TCGA-44-8120 TCGA-44-A479 TCGA-44-A4SS 
       18.31        18.87         3.22         8.55        15.95         3.75 
TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-50-5051 
       32.84         8.81        55.89        15.02        12.13        14.96 
TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5936 TCGA-50-5939 TCGA-50-5946 
        8.05         9.27         8.78         8.45        15.12        22.55 
TCGA-50-6591 TCGA-50-6592 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-53-A4EZ 
        3.88        25.51         8.38        34.26        13.94         9.21 
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-55-6970 TCGA-55-6975 TCGA-55-7726 TCGA-55-7815 TCGA-55-7910 
       40.70        15.25         3.88         1.02         1.78         6.48 
TCGA-55-7995 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 TCGA-55-8505 TCGA-55-8615 
        0.16         3.02         0.85         0.13         0.95         0.49 
TCGA-55-8620 TCGA-55-A494 TCGA-55-A4DF TCGA-62-8398 TCGA-62-8399 TCGA-62-8402 
        2.14         0.16         1.55        14.60        77.10        47.47 
TCGA-62-A46O TCGA-62-A46P TCGA-62-A471 TCGA-64-1677 TCGA-64-1678 TCGA-64-5774 
       47.77        19.53        40.93        20.65        39.09        87.98 
TCGA-64-5775 TCGA-64-5779 TCGA-64-5781 TCGA-67-3771 TCGA-69-7973 TCGA-69-7980 
        2.04        28.41        51.25        20.02         7.56        12.56 
TCGA-69-8255 TCGA-73-4659 TCGA-73-4670 TCGA-78-7148 TCGA-78-7150 TCGA-78-7154 
        4.21        23.38         4.27        20.58        21.86        19.50 
TCGA-78-7155 TCGA-78-7159 TCGA-78-7160 TCGA-78-7161 TCGA-78-7166 TCGA-78-7220 
       38.50        40.11        22.29         7.04         8.48        26.53 
TCGA-78-7536 TCGA-78-8640 TCGA-78-8662 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 
        8.02       208.60       110.50         0.36        20.71        13.87 
TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 TCGA-86-8073 TCGA-86-8358 TCGA-86-8359 
       19.43        16.70        24.49         0.43         0.62         0.85 
TCGA-86-8585 TCGA-86-8669 TCGA-86-8672 TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6829 
        1.12         1.08         0.49         0.99        10.62        41.33 
TCGA-91-6830 TCGA-91-6831 TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 TCGA-91-8499 
        1.97        10.16        12.23        27.68         7.36         1.18 
TCGA-91-A4BC TCGA-93-8067 TCGA-95-7043 TCGA-95-7944 TCGA-95-A4VK TCGA-99-8032 
        1.45         6.08         0.07         0.69         4.04         1.45 
TCGA-99-8033 TCGA-J2-A4AD TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MP-A4T7 TCGA-MP-A4T8 
        5.56         9.44         9.37        20.42         5.49         5.29 
TCGA-MP-A4TA TCGA-MP-A4TD TCGA-MP-A4TF 
       31.20        10.09        11.05 

subtype1 subtype2 subtype3 
    0.20     0.03     0.07 
subtype1 subtype2 subtype3 
   97.74   223.96   208.60 
subtype1 subtype2 subtype3 
   12.66    12.66    12.56 
[1] "0.2 - 97.7 (12.7)"  "0.0 - 224.0 (12.7)" "0.1 - 208.6 (12.6)"
  [1] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [37] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [67] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[115] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[259] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[265] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[271] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[277] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[289] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[307] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[313] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[319] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[325] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[337] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[349] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[355] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[361] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[367] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[373] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[385] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[391] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[397] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[403] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[409] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [1] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [37] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [67] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[115] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[259] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[265] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[271] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[277] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[289] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[307] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[313] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[319] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[325] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[337] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[349] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[355] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[361] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[367] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[373] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[385] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[391] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[397] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[403] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[409] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [1] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [37] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [67] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[115] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[259] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[265] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[271] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[277] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[283] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[289] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[307] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[313] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[319] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[325] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[331] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[337] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[349] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[355] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[361] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[367] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[373] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[385] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[391] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[397] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[403] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[409] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
D8V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       1       20       35        11        21         18          5
  subtype2       0       61       58        16        24         17          3
  subtype3       2       30       38        14        19         31          3
          vv
clus       STAGE IV
  subtype1        4
  subtype2        7
  subtype3       11
D8V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 30 66 13  6
  subtype2 71 94 16  6
  subtype3 38 91 11  6
D8V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  66  27    21
  subtype2 131  33    17
  subtype3  88  25    32
D8V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  79   3   0   0  32
  subtype2 130   5   1   1  48
  subtype3 101  10   0   2  34
D8V6, multiclass
D8V7, binary
          cls
clus         0   1
  subtype1  64  51
  subtype2 120  67
  subtype3  60  88
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   64   51
  subtype2  120   67
  subtype3   60   88
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       64      120       60
  MALE         51       67       88
D8V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          1                                16
  subtype2                          9                                45
  subtype3                          3                                31
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 90
  subtype2                                                 97
  subtype3                                                100
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          4
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             2
  subtype2                                            12
  subtype3                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  2
  subtype2                              0                                  1
  subtype3                              1                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             2
  subtype2                            2                            12
  subtype3                            0                             4
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               0
  subtype2                               1
  subtype3                               0
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             3
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            4
  subtype3                            3
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   4 111
  subtype2   8 179
  subtype3   9 139
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  111
  subtype2    8  179
  subtype3    9  139
     clus
vv    subtype1 subtype2 subtype3
  NO         4        8        9
  YES      111      179      139
D8V11, continuous
D8V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  80   2   1   3
  subtype2 131   4   1   7
  subtype3  98   4   2   6
D8V13, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 110  37
  subtype2 149  55
  subtype3  41  24
subtype1 subtype2 subtype3 
     147      204       65 
subtype1 subtype2 subtype3 
      37       55       24 
$subtype1
TCGA-05-4250 TCGA-05-4384 TCGA-05-4403 TCGA-05-4426 TCGA-05-5429 TCGA-35-3615 
        3.98        14.01        19.00        26.01         0.99         0.46 
TCGA-35-4122 TCGA-38-4626 TCGA-38-7271 TCGA-38-A44F TCGA-44-2655 TCGA-44-2657 
        7.36       120.79        26.30         4.37        43.50        13.15 
TCGA-44-2661 TCGA-44-2666 TCGA-44-3398 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 
       24.36         3.19        38.24         6.21        23.74        12.59 
TCGA-44-6145 TCGA-44-6146 TCGA-44-6148 TCGA-44-6776 TCGA-44-6777 TCGA-44-7659 
       10.78         9.93        11.90        63.72        32.45        14.60 
TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-44-A47B TCGA-44-A47F TCGA-44-A47G 
       12.03        17.59        23.64         9.44        11.08         4.44 
TCGA-49-4486 TCGA-49-4487 TCGA-49-4505 TCGA-49-4510 TCGA-49-6744 TCGA-49-6745 
       76.21        28.11        14.07        29.46        29.26        17.13 
TCGA-50-5044 TCGA-50-5045 TCGA-50-5051 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 
       20.48        71.47        14.96        25.81        49.28        35.87 
TCGA-50-5936 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-53-7626 TCGA-55-6712 
        8.45        18.64        29.00        25.12        30.54         0.79 
TCGA-55-6970 TCGA-55-6972 TCGA-55-6984 TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 
       15.25        48.49        24.99        71.05         2.01         0.59 
TCGA-55-7283 TCGA-55-7573 TCGA-55-7576 TCGA-55-7725 TCGA-55-7727 TCGA-55-7903 
        1.12         0.13         1.32         1.28         1.02         0.62 
TCGA-55-7911 TCGA-55-7914 TCGA-55-8090 TCGA-55-8097 TCGA-55-8207 TCGA-55-8512 
        0.69         0.10         0.20         0.49         2.17         0.10 
TCGA-55-8513 TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X TCGA-55-A492 TCGA-62-8395 
        4.80         1.61         3.45         1.08         0.03        39.95 
TCGA-62-8397 TCGA-62-8399 TCGA-62-A46V TCGA-62-A472 TCGA-64-1680 TCGA-64-1681 
       42.38        77.10        72.30        29.92        37.02        38.33 
TCGA-64-5778 TCGA-64-5815 TCGA-67-3770 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 
       42.90        28.44         0.99        14.04        12.66         5.69 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 
        4.60        13.87         6.12        22.68        13.61         5.42 
TCGA-69-8253 TCGA-69-8254 TCGA-73-4662 TCGA-73-4675 TCGA-73-4676 TCGA-73-7498 
        3.25         2.50        29.95         1.32         5.39        20.42 
TCGA-78-7143 TCGA-78-7145 TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 
      163.10        27.16        20.58        35.93        39.48        24.99 
TCGA-78-7154 TCGA-78-7156 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 TCGA-78-7167 
       19.50        32.09        22.29       104.15         8.48        88.11 
TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-78-8655 TCGA-78-8660 TCGA-86-6562 
       53.33        28.96        32.68        77.59        10.55        12.36 
TCGA-86-8076 TCGA-86-8278 TCGA-86-8280 TCGA-86-8668 TCGA-86-A4P8 TCGA-91-6849 
       10.92        15.65         0.53         1.45         1.28         1.15 
TCGA-91-7771 TCGA-91-8496 TCGA-91-8497 TCGA-91-A4BD TCGA-93-7347 TCGA-95-7567 
       16.18         6.44         5.69         7.17         9.76         5.36 
TCGA-95-7947 TCGA-95-7948 TCGA-95-A4VK TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 
        1.32         4.34         4.04        31.66        63.52        43.76 
TCGA-97-7938 TCGA-97-8174 TCGA-97-8175 TCGA-97-8179 TCGA-97-A4M2 TCGA-99-7458 
        0.59         5.36         2.83         0.49         6.48        12.89 
TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4SY TCGA-MP-A4T7 
       15.06         9.27         7.82         2.50        49.35         5.49 
TCGA-MP-A4TH TCGA-MP-A4TJ TCGA-MP-A4TK 
        4.67        11.15        19.13 

$subtype2
TCGA-05-4382 TCGA-05-4389 TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 
       19.92        45.01        37.02         9.96        24.03        47.05 
TCGA-05-4402 TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 TCGA-05-4420 TCGA-05-4422 
        8.02         2.96        14.93         8.98        29.95        12.00 
TCGA-05-4424 TCGA-05-4425 TCGA-05-4427 TCGA-05-4430 TCGA-05-4432 TCGA-05-4433 
       30.02        21.99        26.01        25.02        25.02        24.00 
TCGA-05-4434 TCGA-05-5420 TCGA-05-5423 TCGA-05-5425 TCGA-05-5428 TCGA-05-5715 
       15.02        15.02         4.96        28.96        22.03         2.04 
TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4628 TCGA-38-4630 TCGA-38-4631 
        5.95         8.68        97.74        49.02        35.28        11.64 
TCGA-38-4632 TCGA-44-2656 TCGA-44-2659 TCGA-44-2662 TCGA-44-2668 TCGA-44-3396 
       44.61        46.98        44.94        42.08         8.09        37.15 
TCGA-44-3918 TCGA-44-5643 TCGA-44-5644 TCGA-44-7660 TCGA-44-7667 TCGA-44-7670 
       34.06        33.30        28.37        10.68        18.31        29.00 
TCGA-44-8117 TCGA-44-8119 TCGA-44-A479 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4488 
       12.66         3.22        15.95        15.32         3.75        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        55.89 
TCGA-49-6743 TCGA-50-5049 TCGA-50-5066 TCGA-50-5930 TCGA-50-5931 TCGA-50-5935 
       12.13        70.55        31.04         9.27         8.78        21.47 
TCGA-50-5946 TCGA-50-6590 TCGA-50-6592 TCGA-50-6597 TCGA-50-6673 TCGA-53-7624 
       22.55        42.31        25.51        33.37         0.72        34.26 
TCGA-53-7813 TCGA-53-A4EZ TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 
       13.94         9.21        23.05        38.73        48.62        45.17 
TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6971 TCGA-55-6979 TCGA-55-6981 
        2.86        42.48        40.70         0.92         7.76        45.34 
TCGA-55-6987 TCGA-55-7728 TCGA-55-7815 TCGA-55-7907 TCGA-55-7910 TCGA-55-7994 
       38.47         0.79         1.78         0.53         6.48         1.02 
TCGA-55-7995 TCGA-55-8085 TCGA-55-8087 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 
        0.16         1.08         0.69         3.02         0.85         0.13 
TCGA-55-8096 TCGA-55-8206 TCGA-55-8301 TCGA-55-8302 TCGA-55-8505 TCGA-55-8506 
        1.55         1.51         1.41         0.72         0.95         0.36 
TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 TCGA-55-8620 
        7.46         0.30         6.97         0.49         1.58         2.14 
TCGA-55-A48Y TCGA-55-A48Z TCGA-55-A490 TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DF 
        1.02         0.95         1.58         0.92         0.16         1.55 
TCGA-55-A4DG TCGA-62-8394 TCGA-62-8398 TCGA-62-8402 TCGA-62-A46O TCGA-62-A46P 
        5.29         4.54        14.60        47.47        47.77        19.53 
TCGA-62-A46R TCGA-62-A46S TCGA-62-A46U TCGA-62-A470 TCGA-62-A471 TCGA-64-1677 
       56.68        54.35        67.96        39.22        40.93        20.65 
TCGA-64-1678 TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 TCGA-67-3771 TCGA-67-3772 
       39.09        87.98         2.04        28.41        20.02        18.84 
TCGA-69-7760 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 
        6.64         7.56         6.05         2.30         2.93        12.56 
TCGA-69-8255 TCGA-69-A59K TCGA-71-6725 TCGA-73-4659 TCGA-73-7499 TCGA-78-7146 
        4.21         7.04         2.01        23.38        17.06         5.65 
TCGA-78-7147 TCGA-78-7150 TCGA-78-7155 TCGA-78-7158 TCGA-78-7159 TCGA-78-7161 
       19.27        21.86        38.50         5.88        40.11         7.04 
TCGA-78-7220 TCGA-78-7535 TCGA-78-7536 TCGA-78-7539 TCGA-78-7542 TCGA-78-8640 
       26.53        31.20         8.02        10.75        10.55       208.60 
TCGA-78-8662 TCGA-83-5908 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 
      110.50        27.06         0.36        20.71        13.87        19.43 
TCGA-86-7955 TCGA-86-8054 TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 TCGA-86-8358 
       16.70        24.49         0.43        15.75        15.85         0.62 
TCGA-86-8359 TCGA-86-8585 TCGA-86-8669 TCGA-86-8671 TCGA-86-8673 TCGA-86-A456 
        0.85         1.12         1.08         0.56        14.93         0.33 
TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6830 TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 
        0.99        10.62         1.97        10.16         2.60        13.71 
TCGA-91-6840 TCGA-91-6847 TCGA-91-8499 TCGA-91-A4BC TCGA-93-8067 TCGA-95-7039 
       12.23        27.68         1.18         1.45         6.08         1.12 
TCGA-95-7043 TCGA-95-7944 TCGA-97-7547 TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 
        0.07         0.69        64.60         0.72         3.48         5.95 
TCGA-99-8025 TCGA-99-8032 TCGA-99-8033 TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 
       14.04         1.45         5.56         3.72         9.44         6.97 
TCGA-L9-A444 TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SW 
        0.20         9.37        20.42        11.61        86.14        58.45 
TCGA-MP-A4T4 TCGA-MP-A4T8 TCGA-MP-A4T9 TCGA-MP-A4TA TCGA-MP-A4TE TCGA-MP-A5C7 
       86.04         5.29        41.59        31.20        29.42        48.99 

$subtype3
TCGA-05-4249 TCGA-05-4405 TCGA-38-4627 TCGA-38-4629 TCGA-38-6178 TCGA-44-2665 
       50.07        20.05        37.71        28.37        14.73        42.77 
TCGA-44-6144 TCGA-44-6147 TCGA-44-6774 TCGA-44-6775 TCGA-44-6778 TCGA-44-6779 
       23.77        27.78        21.63        23.18        36.49        16.41 
TCGA-44-7662 TCGA-44-7669 TCGA-44-8120 TCGA-44-A4SU TCGA-49-4512 TCGA-49-6742 
        7.17        18.87         8.55         2.50         5.16        15.02 
TCGA-49-6761 TCGA-50-5072 TCGA-50-5933 TCGA-50-5939 TCGA-50-6591 TCGA-50-6593 
       11.64         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-55-6978 
       12.16         6.21         8.38         0.07        32.61         5.46 
TCGA-55-6980 TCGA-55-6982 TCGA-55-6983 TCGA-55-6985 TCGA-55-7574 TCGA-55-7726 
        2.20        32.71        60.03        40.54         3.12         1.02 
TCGA-55-7816 TCGA-55-8091 TCGA-55-8299 TCGA-64-1676 TCGA-64-1679 TCGA-64-5781 
        1.02         1.41         7.07        56.81        55.40        51.25 
TCGA-73-4658 TCGA-78-7163 TCGA-78-8648 TCGA-86-8055 TCGA-86-8074 TCGA-86-8672 
       52.57       223.96        39.72         0.33         0.79         0.49 
TCGA-86-8674 TCGA-86-A4P7 TCGA-91-6829 TCGA-91-6848 TCGA-93-7348 TCGA-97-7554 
       13.28         0.43        41.33         7.36         4.18        25.48 
TCGA-97-7937 TCGA-97-8177 TCGA-97-A4M7 TCGA-J2-8192 TCGA-L9-A443 TCGA-MP-A4T2 
        5.95         4.80         8.91         5.03         3.81        37.35 
TCGA-MP-A4T6 TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TF TCGA-MP-A4TI 
       58.85         2.43        10.09        11.05        14.10 

subtype1 subtype2 subtype3 
    0.03     0.07     0.07 
subtype1 subtype2 subtype3 
  163.10   208.60   223.96 
subtype1 subtype2 subtype3 
   12.89    12.61    12.16 
[1] "0.0 - 163.1 (12.9)" "0.1 - 208.6 (12.6)" "0.1 - 224.0 (12.2)"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[121] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[163] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[175] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[193] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[235] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[241] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[253] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[259] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[295] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[307] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[319] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[331] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[337] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[349] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[355] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[367] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[373] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[379] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[385] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[391] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[403] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[409] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[415] "subtype1" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[121] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[163] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[175] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[193] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[235] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[241] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[253] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[259] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[295] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[307] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[319] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[331] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[337] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[349] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[355] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[367] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[373] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[379] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[385] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[391] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[403] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[409] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[415] "subtype1" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
 [91] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[121] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[163] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[175] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[193] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[235] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[241] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[253] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[259] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[283] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[295] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[307] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[319] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[331] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[337] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[349] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[355] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[367] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[373] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[379] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[385] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[391] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[403] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[409] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[415] "subtype1" "subtype2"
D9V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       54       36        14        23         20          2
  subtype2       2       45       74        21        30         31          8
  subtype3       1       13       21         9        10         15          1
          vv
clus       STAGE IV
  subtype1        9
  subtype2       10
  subtype3        2
D9V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  62  75  15   7
  subtype2  55 135  19  10
  subtype3  23  41   6   1
D9V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  98  36    19
  subtype2 147  36    35
  subtype3  42  12    16
D9V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 110   7   0   1  39
  subtype2 156   8   1   2  53
  subtype3  45   1   0   0  25
D9V6, multiclass
D9V7, binary
          cls
clus         0   1
  subtype1  89  70
  subtype2 115 106
  subtype3  38  34
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   89   70
  subtype2  115  106
  subtype3   38   34
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       89      115       38
  MALE         70      106       34
D9V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                35
  subtype2                          8                                50
  subtype3                          0                                 6
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 90
  subtype2                                                143
  subtype3                                                 58
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          3
  subtype2                                          0
  subtype3                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            11
  subtype2                                             4
  subtype3                                             2
          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                             7
  subtype2                            0                             9
  subtype3                            0                             2
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               1
  subtype2                               0
  subtype3                               0
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             3
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            3
  subtype2                            2
  subtype3                            2
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1   7 152
  subtype2   9 212
  subtype3   4  68
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  152
  subtype2    9  212
  subtype3    4   68
     clus
vv    subtype1 subtype2 subtype3
  NO         7        9        4
  YES      152      212       68
D9V11, continuous
D9V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 106   1   2   7
  subtype2 159   6   2   8
  subtype3  43   3   0   3
D9V13, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  33  13
  subtype2 160  62
  subtype3 107  41
subtype1 subtype2 subtype3 
      46      222      148 
subtype1 subtype2 subtype3 
      13       62       41 
$subtype1
TCGA-05-4249 TCGA-05-4405 TCGA-38-4626 TCGA-38-4627 TCGA-38-6178 TCGA-44-2655 
       50.07        20.05       120.79        37.71        14.73        43.50 
TCGA-44-2665 TCGA-44-6774 TCGA-44-6775 TCGA-44-A4SU TCGA-49-4512 TCGA-50-5045 
       42.77        21.63        23.18         2.50         5.16        71.47 
TCGA-50-6591 TCGA-50-6595 TCGA-55-6543 TCGA-55-7726 TCGA-55-8091 TCGA-55-8299 
        3.88         6.21         0.07         1.02         1.41         7.07 
TCGA-55-8506 TCGA-55-A48Y TCGA-62-8402 TCGA-62-A46P TCGA-62-A46V TCGA-67-6216 
        0.36         1.02        47.47        19.53        72.30         4.60 
TCGA-71-6725 TCGA-73-4658 TCGA-73-4675 TCGA-78-7163 TCGA-78-7535 TCGA-78-8648 
        2.01        52.57         1.32       223.96        31.20        39.72 
TCGA-86-8074 TCGA-86-8278 TCGA-86-8668 TCGA-86-8674 TCGA-86-A4P7 TCGA-93-7348 
        0.79        15.65         1.45        13.28         0.43         4.18 
TCGA-97-7554 TCGA-97-8177 TCGA-97-A4M7 TCGA-J2-8192 TCGA-L9-A443 TCGA-MN-A4N1 
       25.48         4.80         8.91         5.03         3.81         9.37 
TCGA-MP-A4SY TCGA-MP-A4T2 TCGA-MP-A4T6 TCGA-MP-A4TF 
       49.35        37.35        58.85        11.05 

$subtype2
TCGA-05-4382 TCGA-05-4389 TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 
       19.92        45.01        37.02         9.96        24.03        47.05 
TCGA-05-4402 TCGA-05-4415 TCGA-05-4417 TCGA-05-4418 TCGA-05-4420 TCGA-05-4422 
        8.02         2.96        14.93         8.98        29.95        12.00 
TCGA-05-4424 TCGA-05-4427 TCGA-05-4430 TCGA-05-4432 TCGA-05-4434 TCGA-05-5420 
       30.02        26.01        25.02        25.02        15.02        15.02 
TCGA-05-5423 TCGA-05-5425 TCGA-05-5428 TCGA-05-5715 TCGA-35-4123 TCGA-35-5375 
        4.96        28.96        22.03         2.04         5.95         8.68 
TCGA-38-4625 TCGA-38-4628 TCGA-38-4629 TCGA-38-4630 TCGA-38-4631 TCGA-38-4632 
       97.74        49.02        28.37        35.28        11.64        44.61 
TCGA-44-2656 TCGA-44-2659 TCGA-44-2662 TCGA-44-2668 TCGA-44-3396 TCGA-44-3918 
       46.98        44.94        42.08         8.09        37.15        34.06 
TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 TCGA-44-7660 TCGA-44-7662 
       33.30        28.37        23.77        36.49        10.68         7.17 
TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 TCGA-44-8117 TCGA-44-8119 TCGA-44-A479 
       18.31        18.87        29.00        12.66         3.22        15.95 
TCGA-44-A47A TCGA-44-A4SS TCGA-49-4486 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 
       15.32         3.75        76.21        28.57        12.66        35.54 
TCGA-49-4501 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 
       46.72        32.84         8.81        55.89        15.02        12.13 
TCGA-49-6761 TCGA-50-5049 TCGA-50-5051 TCGA-50-5066 TCGA-50-5072 TCGA-50-5930 
       11.64        70.55        14.96        31.04         8.05         9.27 
TCGA-50-5931 TCGA-50-5933 TCGA-50-5935 TCGA-50-5946 TCGA-50-6590 TCGA-50-6592 
        8.78        77.88        21.47        22.55        42.31        25.51 
TCGA-50-6594 TCGA-50-6673 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-53-A4EZ 
       12.16         0.72         8.38        34.26        13.94         9.21 
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-55-7994 TCGA-55-7995 
       38.47         1.78         0.53         6.48         1.02         0.16 
TCGA-55-8085 TCGA-55-8087 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 TCGA-55-8096 
        1.08         0.69         3.02         0.85         0.13         1.55 
TCGA-55-8097 TCGA-55-8206 TCGA-55-8301 TCGA-55-8302 TCGA-55-8505 TCGA-55-8510 
        0.49         1.51         1.41         0.72         0.95         7.46 
TCGA-55-8511 TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 TCGA-55-8620 TCGA-55-A48Z 
        0.30         6.97         0.49         1.58         2.14         0.95 
TCGA-55-A490 TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DF TCGA-55-A4DG TCGA-62-8394 
        1.58         0.92         0.16         1.55         5.29         4.54 
TCGA-62-8395 TCGA-62-8398 TCGA-62-8399 TCGA-62-A46O TCGA-62-A46S TCGA-62-A46U 
       39.95        14.60        77.10        47.77        54.35        67.96 
TCGA-62-A470 TCGA-62-A471 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 TCGA-64-1679 
       39.22        40.93        56.81        20.65        39.09        55.40 
TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 TCGA-64-5781 TCGA-67-3771 TCGA-67-3772 
       87.98         2.04        28.41        51.25        20.02        18.84 
TCGA-67-3773 TCGA-67-3774 TCGA-69-7760 TCGA-69-7761 TCGA-69-7764 TCGA-69-7973 
       14.04        12.66         6.64         6.12        13.61         7.56 
TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 TCGA-69-8255 TCGA-69-A59K 
        6.05         2.30         2.93        12.56         4.21         7.04 
TCGA-73-4659 TCGA-73-4662 TCGA-73-7499 TCGA-78-7146 TCGA-78-7150 TCGA-78-7153 
       23.38        29.95        17.06         5.65        21.86        24.99 
TCGA-78-7155 TCGA-78-7158 TCGA-78-7159 TCGA-78-7161 TCGA-78-7220 TCGA-78-7536 
       38.50         5.88        40.11         7.04        26.53         8.02 
TCGA-78-7539 TCGA-78-7542 TCGA-78-8640 TCGA-78-8662 TCGA-83-5908 TCGA-86-7701 
       10.75        10.55       208.60       110.50        27.06         0.36 
TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 
       20.71        13.87        19.43        16.70        24.49         0.33 
TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 
        0.43        15.75        15.85         0.62         0.85         1.12 
TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 TCGA-86-8673 TCGA-86-A456 TCGA-86-A4D0 
        1.08         0.56         0.49        14.93         0.33         0.99 
TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 
       10.62        41.33         1.97        10.16         2.60        13.71 
TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 TCGA-91-7771 TCGA-91-8497 TCGA-91-8499 
       12.23        27.68         7.36        16.18         5.69         1.18 
TCGA-91-A4BC TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 TCGA-97-7547 
        1.45         6.08         1.12         0.07         0.69        64.60 
TCGA-97-8171 TCGA-97-8172 TCGA-99-8025 TCGA-99-8032 TCGA-99-8033 TCGA-J2-A4AD 
        3.48         5.95        14.04         1.45         5.56         9.44 
TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SW 
        6.97         0.20        20.42        11.61        86.14        58.45 
TCGA-MP-A4T8 TCGA-MP-A4T9 TCGA-MP-A4TA TCGA-MP-A4TD TCGA-MP-A4TE TCGA-MP-A5C7 
        5.29        41.59        31.20        10.09        29.42        48.99 

$subtype3
TCGA-05-4250 TCGA-05-4384 TCGA-05-4403 TCGA-05-4425 TCGA-05-4426 TCGA-05-4433 
        3.98        14.01        19.00        21.99        26.01        24.00 
TCGA-05-5429 TCGA-35-3615 TCGA-35-4122 TCGA-38-7271 TCGA-38-A44F TCGA-44-2657 
        0.99         0.46         7.36        26.30         4.37        13.15 
TCGA-44-2661 TCGA-44-2666 TCGA-44-3398 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 
       24.36         3.19        38.24         6.21        23.74        12.59 
TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-6777 
       10.78         9.93        27.78        11.90        63.72        32.45 
TCGA-44-6779 TCGA-44-7659 TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-44-8120 
       16.41        14.60        12.03        17.59        23.64         8.55 
TCGA-44-A47B TCGA-44-A47F TCGA-44-A47G TCGA-49-4487 TCGA-49-4505 TCGA-49-4510 
        9.44        11.08         4.44        28.11        14.07        29.46 
TCGA-49-6744 TCGA-49-6745 TCGA-50-5044 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 
       29.26        17.13        20.48        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        18.64        29.00        25.12        11.05 
TCGA-50-6597 TCGA-53-7626 TCGA-55-1595 TCGA-55-6712 TCGA-55-6970 TCGA-55-6972 
       33.37        30.54        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-55-7903 TCGA-55-7911 TCGA-55-7914 
        1.02         0.79         1.02         0.62         0.69         0.10 
TCGA-55-8090 TCGA-55-8207 TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 TCGA-55-8621 
        0.20         2.17         0.10         4.80         1.61         3.45 
TCGA-55-A48X TCGA-55-A492 TCGA-62-8397 TCGA-62-A46R TCGA-62-A472 TCGA-64-1680 
        1.08         0.03        42.38        56.68        29.92        37.02 
TCGA-64-1681 TCGA-64-5778 TCGA-64-5815 TCGA-67-3770 TCGA-67-6215 TCGA-67-6217 
       38.33        42.90        28.44         0.99         5.69        13.87 
TCGA-69-7763 TCGA-69-7765 TCGA-69-8253 TCGA-69-8254 TCGA-73-4676 TCGA-73-7498 
       22.68         5.42         3.25         2.50         5.39        20.42 
TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 
      163.10        27.16        19.27        20.58        35.93        39.48 
TCGA-78-7154 TCGA-78-7156 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 TCGA-78-7167 
       19.50        32.09        22.29       104.15         8.48        88.11 
TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-78-8655 TCGA-78-8660 TCGA-86-6562 
       53.33        28.96        32.68        77.59        10.55        12.36 
TCGA-86-8076 TCGA-86-8280 TCGA-86-A4P8 TCGA-91-6849 TCGA-91-8496 TCGA-91-A4BD 
       10.92         0.53         1.28         1.15         6.44         7.17 
TCGA-93-7347 TCGA-95-7567 TCGA-95-7947 TCGA-95-7948 TCGA-95-A4VK TCGA-97-7546 
        9.76         5.36         1.32         4.34         4.04        31.66 
TCGA-97-7552 TCGA-97-7553 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-97-8174 
       63.52        43.76         5.95         0.59         0.72         5.36 
TCGA-97-8175 TCGA-97-8179 TCGA-97-A4M2 TCGA-99-7458 TCGA-99-8028 TCGA-J2-8194 
        2.83         0.49         6.48        12.89        15.06         3.72 
TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4T4 TCGA-MP-A4T7 TCGA-MP-A4TC 
        9.27         7.82         2.50        86.04         5.49         2.43 
TCGA-MP-A4TH TCGA-MP-A4TI TCGA-MP-A4TJ TCGA-MP-A4TK 
        4.67        14.10        11.15        19.13 

subtype1 subtype2 subtype3 
    0.07     0.07     0.03 
subtype1 subtype2 subtype3 
  223.96   208.60   163.10 
subtype1 subtype2 subtype3 
  12.165   13.135   12.195 
[1] "0.1 - 224.0 (12.2)" "0.1 - 208.6 (13.1)" "0.0 - 163.1 (12.2)"
  [1] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[199] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[205] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[229] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[271] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[277] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[295] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[301] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[307] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[319] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[325] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[331] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[349] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[355] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[361] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[367] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[373] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[379] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[385] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[391] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[403] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[409] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[415] "subtype3" "subtype2"
  [1] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[199] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[205] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[229] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[271] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[277] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[295] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[301] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[307] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[319] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[325] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[331] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[349] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[355] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[361] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[367] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[373] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[379] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[385] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[391] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[403] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[409] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[415] "subtype3" "subtype2"
  [1] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [73] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[199] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[205] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[229] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[271] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[277] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[295] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[301] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[307] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[319] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[325] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[331] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[349] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[355] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[361] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[367] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[373] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[379] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[385] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[391] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[403] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[409] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[415] "subtype3" "subtype2"
D10V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       12       12         9         6          9          0
  subtype2       3       50       76        22        33         37          9
  subtype3       0       50       43        13        24         20          2
          vv
clus       STAGE IV
  subtype1        1
  subtype2        9
  subtype3       11
D10V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  15  31   3   0
  subtype2  64 140  23  10
  subtype3  61  80  14   8
D10V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  29  12     8
  subtype2 156  37    43
  subtype3 102  35    19
D10V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  35   1   0   0  12
  subtype2 167   7   1   2  61
  subtype3 109   8   0   1  44
D10V6, multiclass
D10V7, binary
          cls
clus         0   1
  subtype1  37  12
  subtype2 114 125
  subtype3  91  73
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37   12
  subtype2  114  125
  subtype3   91   73
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       37      114       91
  MALE         12      125       73
D10V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          0                                 6
  subtype2                          8                                47
  subtype3                          5                                38
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 37
  subtype2                                                164
  subtype3                                                 90
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             0
  subtype2                                             5
  subtype3                                            12
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              1                                  0
  subtype3                              1                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             3
  subtype2                            0                             9
  subtype3                            2                             6
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               0
  subtype2                               0
  subtype3                               1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             1
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            2
  subtype3                            5
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   2  47
  subtype2  11 228
  subtype3   7 157
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   47
  subtype2   11  228
  subtype3    7  157
     clus
vv    subtype1 subtype2 subtype3
  NO         2       11        7
  YES       47      228      157
D10V11, continuous
D10V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  36   2   0   3
  subtype2 164   5   2  10
  subtype3 108   3   2   5
D10V13, multiclass

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2        0   1
  subtype1  95  35
  subtype2 123  36
  subtype3  43  23
subtype1 subtype2 subtype3 
     130      159       66 
subtype1 subtype2 subtype3 
      35       36       23 
$subtype1
TCGA-05-4384 TCGA-05-4396 TCGA-05-4405 TCGA-05-4424 TCGA-05-4427 TCGA-05-4433 
       14.01         9.96        20.05        30.02        26.01        24.00 
TCGA-05-5423 TCGA-05-5429 TCGA-38-7271 TCGA-38-A44F TCGA-44-5645 TCGA-44-6145 
        4.96         0.99        26.30         4.37        12.59        10.78 
TCGA-44-6146 TCGA-44-6147 TCGA-44-6776 TCGA-44-6777 TCGA-44-6779 TCGA-44-7659 
        9.93        27.78        63.72        32.45        16.41        14.60 
TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-44-A47B TCGA-44-A47G TCGA-49-4487 
       12.03        17.59        23.64         9.44         4.44        28.11 
TCGA-49-4490 TCGA-49-4514 TCGA-49-6744 TCGA-49-6745 TCGA-50-5044 TCGA-50-5051 
       12.66        55.89        29.26        17.13        20.48        14.96 
TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5935 TCGA-50-5936 TCGA-50-5939 
       25.81        49.28        35.87        21.47         8.45        15.12 
TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 TCGA-53-7626 
       18.64        29.00        25.12        11.05        33.37        30.54 
TCGA-55-6712 TCGA-55-6972 TCGA-55-6984 TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 
        0.79        48.49        24.99        71.05         2.01         0.59 
TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7576 TCGA-55-7725 TCGA-55-7727 
        1.12         0.13         3.12         1.32         1.28         1.02 
TCGA-55-7903 TCGA-55-7911 TCGA-55-7914 TCGA-55-8097 TCGA-55-8206 TCGA-55-8207 
        0.62         0.69         0.10         0.49         1.51         2.17 
TCGA-55-8512 TCGA-55-8513 TCGA-55-8616 TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X 
        0.10         4.80         1.58         1.61         3.45         1.08 
TCGA-55-A492 TCGA-62-8397 TCGA-62-A46R TCGA-62-A472 TCGA-64-1681 TCGA-67-6215 
        0.03        42.38        56.68        29.92        38.33         5.69 
TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 TCGA-69-8253 
       13.87         6.12        22.68        13.61         5.42         3.25 
TCGA-69-8254 TCGA-73-4676 TCGA-73-7498 TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 
        2.50         5.39        20.42       163.10        27.16        19.27 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 TCGA-78-7154 TCGA-78-7156 
       20.58        35.93        39.48        24.99        19.50        32.09 
TCGA-78-7158 TCGA-78-7160 TCGA-78-7162 TCGA-78-7167 TCGA-78-7537 TCGA-78-7539 
        5.88        22.29       104.15        88.11        53.33        10.75 
TCGA-78-7540 TCGA-78-7542 TCGA-78-7633 TCGA-86-6562 TCGA-86-8076 TCGA-86-A456 
       28.96        10.55        32.68        12.36        10.92         0.33 
TCGA-86-A4P8 TCGA-91-6828 TCGA-91-6835 TCGA-91-6849 TCGA-91-7771 TCGA-91-8496 
        1.28        10.62         2.60         1.15        16.18         6.44 
TCGA-91-8497 TCGA-91-A4BD TCGA-93-7347 TCGA-95-7567 TCGA-95-A4VK TCGA-97-7546 
        5.69         7.17         9.76         5.36         4.04        31.66 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7937 TCGA-97-7938 TCGA-97-8172 
       64.60        63.52        43.76         5.95         0.59         5.95 
TCGA-97-8174 TCGA-97-8179 TCGA-97-A4M2 TCGA-99-7458 TCGA-J2-A4AE TCGA-J2-A4AG 
        5.36         0.49         6.48        12.89         9.27         7.82 
TCGA-L4-A4E6 TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TH 
        2.50         5.49        41.59         4.67 

$subtype2
TCGA-05-4390 TCGA-05-4415 TCGA-05-4425 TCGA-05-5420 TCGA-05-5425 TCGA-05-5428 
       37.02         2.96        21.99        15.02        28.96        22.03 
TCGA-05-5715 TCGA-35-5375 TCGA-38-4632 TCGA-44-5643 TCGA-44-5644 TCGA-44-7660 
        2.04         8.68        44.61        33.30        28.37        10.68 
TCGA-44-7670 TCGA-44-8117 TCGA-44-8119 TCGA-44-8120 TCGA-44-A479 TCGA-44-A47A 
       29.00        12.66         3.22         8.55        15.95        15.32 
TCGA-44-A47F TCGA-44-A4SS TCGA-49-4488 TCGA-49-6743 TCGA-50-5049 TCGA-50-5066 
       11.08         3.75        28.57        12.13        70.55        31.04 
TCGA-50-5930 TCGA-50-5931 TCGA-50-5946 TCGA-50-6590 TCGA-50-6592 TCGA-50-6594 
        9.27         8.78        22.55        42.31        25.51        12.16 
TCGA-50-6673 TCGA-53-7624 TCGA-53-7813 TCGA-53-A4EZ TCGA-55-5899 TCGA-55-6968 
        0.72        34.26        13.94         9.21         2.86        42.48 
TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 
       40.70        15.25         0.92         7.76         2.20        45.34 
TCGA-55-6987 TCGA-55-7728 TCGA-55-7907 TCGA-55-7910 TCGA-55-7994 TCGA-55-7995 
       38.47         0.79         0.53         6.48         1.02         0.16 
TCGA-55-8085 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8092 TCGA-55-8094 
        1.08         0.69         3.02         0.20         0.85         0.13 
TCGA-55-8096 TCGA-55-8301 TCGA-55-8302 TCGA-55-8505 TCGA-55-8506 TCGA-55-8510 
        1.55         1.41         0.72         0.95         0.36         7.46 
TCGA-55-8511 TCGA-55-8514 TCGA-55-8615 TCGA-55-8620 TCGA-55-A48Y TCGA-55-A48Z 
        0.30         6.97         0.49         2.14         1.02         0.95 
TCGA-55-A490 TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DF TCGA-62-8394 TCGA-62-8395 
        1.58         0.92         0.16         1.55         4.54        39.95 
TCGA-62-8398 TCGA-62-8399 TCGA-62-A46O TCGA-62-A46P TCGA-62-A46S TCGA-62-A46U 
       14.60        77.10        47.77        19.53        54.35        67.96 
TCGA-62-A470 TCGA-62-A471 TCGA-64-5774 TCGA-64-5775 TCGA-64-5778 TCGA-64-5779 
       39.22        40.93        87.98         2.04        42.90        28.41 
TCGA-64-5781 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 
       51.25         7.56         6.05         2.30         2.93        12.56 
TCGA-69-8255 TCGA-69-A59K TCGA-73-7499 TCGA-78-7146 TCGA-78-7150 TCGA-78-7155 
        4.21         7.04        17.06         5.65        21.86        38.50 
TCGA-78-7159 TCGA-78-7161 TCGA-78-7535 TCGA-78-7536 TCGA-78-8640 TCGA-78-8655 
       40.11         7.04        31.20         8.02       208.60        77.59 
TCGA-78-8660 TCGA-78-8662 TCGA-83-5908 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 
       10.55       110.50        27.06         0.36        20.71        13.87 
TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 
       19.43        16.70        24.49         0.43        15.75        15.85 
TCGA-86-8280 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 TCGA-86-8669 TCGA-86-8671 
        0.53         0.62         0.85         1.12         1.08         0.56 
TCGA-86-8672 TCGA-86-8673 TCGA-86-8674 TCGA-86-A4D0 TCGA-91-6830 TCGA-91-6831 
        0.49        14.93        13.28         0.99         1.97        10.16 
TCGA-91-6836 TCGA-91-6840 TCGA-91-6847 TCGA-91-8499 TCGA-93-8067 TCGA-95-7039 
       13.71        12.23        27.68         1.18         6.08         1.12 
TCGA-95-7043 TCGA-95-7944 TCGA-95-7947 TCGA-95-7948 TCGA-97-7941 TCGA-97-8171 
        0.07         0.69         1.32         4.34         0.72         3.48 
TCGA-97-8175 TCGA-99-8025 TCGA-99-8028 TCGA-99-8032 TCGA-99-8033 TCGA-J2-8194 
        2.83        14.04        15.06         1.45         5.56         3.72 
TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MN-A4N5 
        9.44         6.97         0.20         9.37        20.42        11.61 
TCGA-MP-A4SV TCGA-MP-A4SW TCGA-MP-A4T4 TCGA-MP-A4T8 TCGA-MP-A4TA TCGA-MP-A4TE 
       86.14        58.45        86.04         5.29        31.20        29.42 
TCGA-MP-A4TF TCGA-MP-A4TJ TCGA-MP-A5C7 
       11.05        11.15        48.99 

$subtype3
TCGA-05-4417 TCGA-38-4631 TCGA-38-6178 TCGA-44-6144 TCGA-44-6148 TCGA-44-6774 
       14.93        11.64        14.73        23.77        11.90        21.63 
TCGA-44-6775 TCGA-44-6778 TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 TCGA-44-A4SU 
       23.18        36.49         7.17        18.31        18.87         2.50 
TCGA-49-4512 TCGA-49-6742 TCGA-49-6761 TCGA-50-5045 TCGA-50-5072 TCGA-50-5933 
        5.16        15.02        11.64        71.47         8.05        77.88 
TCGA-50-6591 TCGA-50-6595 TCGA-50-7109 TCGA-55-6543 TCGA-55-6642 TCGA-55-6978 
        3.88         6.21         8.38         0.07        32.61         5.46 
TCGA-55-6982 TCGA-55-6983 TCGA-55-6985 TCGA-55-7726 TCGA-55-7815 TCGA-55-7816 
       32.71        60.03        40.54         1.02         1.78         1.02 
TCGA-55-8091 TCGA-55-8299 TCGA-55-A4DG TCGA-62-8402 TCGA-62-A46V TCGA-64-1679 
        1.41         7.07         5.29        47.47        72.30        55.40 
TCGA-64-5815 TCGA-67-6216 TCGA-69-7760 TCGA-71-6725 TCGA-73-4658 TCGA-78-7163 
       28.44         4.60         6.64         2.01        52.57       223.96 
TCGA-78-7166 TCGA-78-7220 TCGA-78-8648 TCGA-86-8055 TCGA-86-8074 TCGA-86-8278 
        8.48        26.53        39.72         0.33         0.79        15.65 
TCGA-86-8668 TCGA-86-A4P7 TCGA-91-6829 TCGA-91-6848 TCGA-91-A4BC TCGA-93-7348 
        1.45         0.43        41.33         7.36         1.45         4.18 
TCGA-97-7554 TCGA-97-8177 TCGA-97-A4M7 TCGA-J2-8192 TCGA-L9-A443 TCGA-MP-A4SY 
       25.48         4.80         8.91         5.03         3.81        49.35 
TCGA-MP-A4T2 TCGA-MP-A4T6 TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TI TCGA-MP-A4TK 
       37.35        58.85         2.43        10.09        14.10        19.13 

subtype1 subtype2 subtype3 
    0.03     0.07     0.07 
subtype1 subtype2 subtype3 
  163.10   208.60   223.96 
subtype1 subtype2 subtype3 
  12.195    9.370   11.640 
[1] "0.0 - 163.1 (12.2)" "0.1 - 208.6 (9.4)"  "0.1 - 224.0 (11.6)"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [37] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[127] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[187] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[217] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[235] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[277] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[283] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[295] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[307] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[313] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[319] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[325] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[331] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[343] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[349] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[355] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [37] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[127] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[187] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[217] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[235] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[277] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[283] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[295] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[307] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[313] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[319] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[325] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[331] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[343] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[349] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[355] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [37] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[127] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[187] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[217] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[229] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[235] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[277] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[283] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[289] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[295] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[307] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[313] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[319] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[325] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[331] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[343] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[349] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[355] "subtype2"
D11V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       43       36        12        16         20          4
  subtype2       2       39       58        21        23         22          4
  subtype3       1       15       17         8        14         15          1
          vv
clus       STAGE IV
  subtype1        7
  subtype2        8
  subtype3        2
D11V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  53  62  14  10
  subtype2  49 107  15   4
  subtype3  22  44   5   1
D11V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  89  26    19
  subtype2 121  28    25
  subtype3  40  16    16
D11V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  90   5   0   1  41
  subtype2 119   6   1   2  48
  subtype3  43   1   0   0  28
D11V6, multiclass
D11V7, binary
          cls
clus        0  1
  subtype1 81 58
  subtype2 86 91
  subtype3 41 32
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   81   58
  subtype2   86   91
  subtype3   41   32
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       81       86       41
  MALE         58       91       32
D11V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          6                                38
  subtype2                          6                                31
  subtype3                          1                                 7
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 71
  subtype2                                                118
  subtype3                                                 56
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             9
  subtype2                                             7
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              1                                  0
  subtype3                              0                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            1                             8
  subtype2                            0                             7
  subtype3                            1                             2
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               0
  subtype2                               1
  subtype3                               0
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             4
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            3
  subtype2                            2
  subtype3                            2
D11V9, multiclass
D11V10, binary
          cls
clus         0   1
  subtype1   6 133
  subtype2   6 171
  subtype3   6  67
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  133
  subtype2    6  171
  subtype3    6   67
     clus
vv    subtype1 subtype2 subtype3
  NO         6        6        6
  YES      133      171       67
D11V11, continuous
D11V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  84   4   1   4
  subtype2 127   2   0   6
  subtype3  45   2   0   5
D11V13, multiclass

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2        0   1
  subtype1  29  13
  subtype2 125  38
  subtype3 107  43
subtype1 subtype2 subtype3 
      42      163      150 
subtype1 subtype2 subtype3 
      13       38       43 
$subtype1
TCGA-05-4417 TCGA-38-6178 TCGA-44-6774 TCGA-44-7667 TCGA-44-7669 TCGA-44-A479 
       14.93        14.73        21.63        18.31        18.87        15.95 
TCGA-44-A4SU TCGA-50-6591 TCGA-50-6595 TCGA-55-6543 TCGA-55-6642 TCGA-55-7726 
        2.50         3.88         6.21         0.07        32.61         1.02 
TCGA-55-8091 TCGA-55-A48Y TCGA-62-8402 TCGA-62-A46P TCGA-62-A46V TCGA-67-6216 
        1.41         1.02        47.47        19.53        72.30         4.60 
TCGA-73-4658 TCGA-78-7163 TCGA-78-8648 TCGA-86-8074 TCGA-86-8278 TCGA-86-8668 
       52.57       223.96        39.72         0.79        15.65         1.45 
TCGA-86-8673 TCGA-86-8674 TCGA-86-A4P7 TCGA-91-A4BC TCGA-93-7348 TCGA-97-7554 
       14.93        13.28         0.43         1.45         4.18        25.48 
TCGA-97-8177 TCGA-97-A4M7 TCGA-99-8032 TCGA-J2-8192 TCGA-L9-A443 TCGA-MP-A4T2 
        4.80         8.91         1.45         5.03         3.81        37.35 
TCGA-MP-A4T6 TCGA-MP-A4T8 TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TF TCGA-MP-A4TK 
       58.85         5.29         2.43        10.09        11.05        19.13 

$subtype2
TCGA-05-4390 TCGA-05-4415 TCGA-05-4424 TCGA-05-4427 TCGA-05-5420 TCGA-05-5425 
       37.02         2.96        30.02        26.01        15.02        28.96 
TCGA-05-5428 TCGA-05-5715 TCGA-35-5375 TCGA-38-4631 TCGA-38-4632 TCGA-44-5643 
       22.03         2.04         8.68        11.64        44.61        33.30 
TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 TCGA-44-7660 TCGA-44-7662 TCGA-44-7670 
       28.37        23.77        36.49        10.68         7.17        29.00 
TCGA-44-8117 TCGA-44-8119 TCGA-44-8120 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4488 
       12.66         3.22         8.55        15.32         3.75        28.57 
TCGA-49-4490 TCGA-49-6742 TCGA-49-6743 TCGA-49-6761 TCGA-50-5049 TCGA-50-5066 
       12.66        15.02        12.13        11.64        70.55        31.04 
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        22.55        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        34.26        13.94 
TCGA-53-A4EZ TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6971 TCGA-55-6978 
        9.21         2.86        42.48        40.70         0.92         5.46 
TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6987 TCGA-55-7907 
        7.76         2.20        45.34        32.71        38.47         0.53 
TCGA-55-7910 TCGA-55-7994 TCGA-55-7995 TCGA-55-8085 TCGA-55-8087 TCGA-55-8089 
        6.48         1.02         0.16         1.08         0.69         3.02 
TCGA-55-8092 TCGA-55-8094 TCGA-55-8096 TCGA-55-8097 TCGA-55-8206 TCGA-55-8299 
        0.85         0.13         1.55         0.49         1.51         7.07 
TCGA-55-8301 TCGA-55-8302 TCGA-55-8505 TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 
        1.41         0.72         0.95         7.46         0.30         6.97 
TCGA-55-8615 TCGA-55-8620 TCGA-55-A48Z TCGA-55-A490 TCGA-55-A493 TCGA-55-A494 
        0.49         2.14         0.95         1.58         0.92         0.16 
TCGA-55-A4DF TCGA-62-8394 TCGA-62-8398 TCGA-62-8399 TCGA-62-A46O TCGA-62-A46U 
        1.55         4.54        14.60        77.10        47.77        67.96 
TCGA-62-A470 TCGA-62-A471 TCGA-64-1679 TCGA-64-5774 TCGA-64-5775 TCGA-64-5778 
       39.22        40.93        55.40        87.98         2.04        42.90 
TCGA-64-5779 TCGA-64-5781 TCGA-69-7760 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 
       28.41        51.25         6.64         7.56         6.05         2.30 
TCGA-69-7979 TCGA-69-7980 TCGA-69-8255 TCGA-69-A59K TCGA-73-7499 TCGA-78-7146 
        2.93        12.56         4.21         7.04        17.06         5.65 
TCGA-78-7150 TCGA-78-7155 TCGA-78-7159 TCGA-78-7161 TCGA-78-7220 TCGA-78-7536 
       21.86        38.50        40.11         7.04        26.53         8.02 
TCGA-78-7539 TCGA-78-7542 TCGA-78-8640 TCGA-78-8662 TCGA-83-5908 TCGA-86-7701 
       10.75        10.55       208.60       110.50        27.06         0.36 
TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 
       20.71        13.87        19.43        16.70        24.49         0.33 
TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 
        0.43        15.75        15.85         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        10.62 
TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6836 TCGA-91-6840 TCGA-91-6847 
       41.33         1.97        10.16        13.71        12.23        27.68 
TCGA-91-6848 TCGA-91-6849 TCGA-91-8499 TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 
        7.36         1.15         1.18         6.08         1.12         0.07 
TCGA-95-7567 TCGA-95-7944 TCGA-95-7947 TCGA-95-7948 TCGA-97-8171 TCGA-97-8172 
        5.36         0.69         1.32         4.34         3.48         5.95 
TCGA-99-8033 TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N1 
        5.56         3.72         9.44         6.97         0.20         9.37 
TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SW TCGA-MP-A4TA TCGA-MP-A4TE 
       20.42        11.61        86.14        58.45        31.20        29.42 
TCGA-MP-A4TI 
       14.10 

$subtype3
TCGA-05-4384 TCGA-05-4396 TCGA-05-4405 TCGA-05-4425 TCGA-05-4433 TCGA-05-5423 
       14.01         9.96        20.05        21.99        24.00         4.96 
TCGA-05-5429 TCGA-38-7271 TCGA-38-A44F TCGA-44-5645 TCGA-44-6145 TCGA-44-6146 
        0.99        26.30         4.37        12.59        10.78         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6775 TCGA-44-6776 TCGA-44-6777 TCGA-44-6779 
       27.78        11.90        23.18        63.72        32.45        16.41 
TCGA-44-7659 TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-44-A47B TCGA-44-A47F 
       14.60        12.03        17.59        23.64         9.44        11.08 
TCGA-44-A47G TCGA-49-4487 TCGA-49-4512 TCGA-49-4514 TCGA-49-6744 TCGA-49-6745 
        4.44        28.11         5.16        55.89        29.26        17.13 
TCGA-50-5044 TCGA-50-5045 TCGA-50-5051 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 
       20.48        71.47        14.96        25.81        49.28        35.87 
TCGA-50-5933 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 
       77.88         8.45        15.12        18.64        29.00        25.12 
TCGA-50-6593 TCGA-50-6597 TCGA-53-7626 TCGA-55-6712 TCGA-55-6970 TCGA-55-6972 
       11.05        33.37        30.54         0.79        15.25        48.49 
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-55-7574 TCGA-55-7576 TCGA-55-7725 TCGA-55-7727 
        1.12         0.13         3.12         1.32         1.28         1.02 
TCGA-55-7728 TCGA-55-7815 TCGA-55-7816 TCGA-55-7903 TCGA-55-7911 TCGA-55-7914 
        0.79         1.78         1.02         0.62         0.69         0.10 
TCGA-55-8090 TCGA-55-8207 TCGA-55-8506 TCGA-55-8512 TCGA-55-8513 TCGA-55-8616 
        0.20         2.17         0.36         0.10         4.80         1.58 
TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X TCGA-55-A492 TCGA-55-A4DG TCGA-62-8395 
        1.61         3.45         1.08         0.03         5.29        39.95 
TCGA-62-8397 TCGA-62-A46R TCGA-62-A46S TCGA-62-A472 TCGA-64-1681 TCGA-64-5815 
       42.38        56.68        54.35        29.92        38.33        28.44 
TCGA-67-6215 TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 
        5.69        13.87         6.12        22.68        13.61         5.42 
TCGA-69-8253 TCGA-69-8254 TCGA-71-6725 TCGA-73-4676 TCGA-73-7498 TCGA-78-7143 
        3.25         2.50         2.01         5.39        20.42       163.10 
TCGA-78-7145 TCGA-78-7147 TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 
       27.16        19.27        20.58        35.93        39.48        24.99 
TCGA-78-7154 TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 
       19.50        32.09         5.88        22.29       104.15         8.48 
TCGA-78-7167 TCGA-78-7535 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-78-8655 
       88.11        31.20        53.33        28.96        32.68        77.59 
TCGA-78-8660 TCGA-86-6562 TCGA-86-8076 TCGA-86-8280 TCGA-86-A4P8 TCGA-91-6835 
       10.55        12.36        10.92         0.53         1.28         2.60 
TCGA-91-7771 TCGA-91-8496 TCGA-91-8497 TCGA-91-A4BD TCGA-93-7347 TCGA-95-A4VK 
       16.18         6.44         5.69         7.17         9.76         4.04 
TCGA-97-7546 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7937 TCGA-97-7938 
       31.66        64.60        63.52        43.76         5.95         0.59 
TCGA-97-7941 TCGA-97-8174 TCGA-97-8175 TCGA-97-8179 TCGA-97-A4M2 TCGA-99-7458 
        0.72         5.36         2.83         0.49         6.48        12.89 
TCGA-99-8025 TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4SY 
       14.04        15.06         9.27         7.82         2.50        49.35 
TCGA-MP-A4T4 TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TH TCGA-MP-A4TJ TCGA-MP-A5C7 
       86.04         5.49        41.59         4.67        11.15        48.99 

subtype1 subtype2 subtype3 
    0.07     0.07     0.03 
subtype1 subtype2 subtype3 
  223.96   208.60   163.10 
subtype1 subtype2 subtype3 
   10.57     8.78    13.25 
[1] "0.1 - 224.0 (10.6)" "0.1 - 208.6 (8.8)"  "0.0 - 163.1 (13.2)"
  [1] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [13] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [49] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[175] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[223] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[229] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[241] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[247] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[271] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[277] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[295] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[307] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[313] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[319] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[325] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[331] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[349] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[355] "subtype3"
  [1] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [13] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [49] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[175] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[223] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[229] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[241] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[247] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[271] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[277] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[295] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[307] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[313] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[319] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[325] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[331] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[349] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[355] "subtype3"
  [1] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [13] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [49] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[133] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[175] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[181] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[223] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[229] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[241] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[247] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[271] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[277] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[295] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[307] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[313] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[319] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[325] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[331] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[349] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[355] "subtype3"
D12V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       10       11         8         5         10          0
  subtype2       3       39       57        21        23         26          4
  subtype3       0       48       43        12        25         21          5
          vv
clus       STAGE IV
  subtype1        1
  subtype2        7
  subtype3        9
D12V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  15  28   2   0
  subtype2  52 107  15   4
  subtype3  57  78  17  11
D12V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  27   8    10
  subtype2 119  30    29
  subtype3 104  32    21
D12V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  29   1   0   0  14
  subtype2 119   5   1   2  52
  subtype3 104   6   0   1  51
D12V6, multiclass
D12V7, binary
          cls
clus        0  1
  subtype1 30 15
  subtype2 84 96
  subtype3 94 70
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   30   15
  subtype2   84   96
  subtype3   94   70
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       30       84       94
  MALE         15       96       70
D12V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          0                                 6
  subtype2                          7                                32
  subtype3                          6                                38
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 33
  subtype2                                                124
  subtype3                                                 88
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             1
  subtype2                                             6
  subtype3                                            10
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              1                                  0
  subtype3                              0                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             2
  subtype2                            0                             5
  subtype3                            2                            10
          vv
clus       LUNG SIGNET RING ADENOCARCINOMA
  subtype1                               0
  subtype2                               0
  subtype3                               1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             1
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            2
  subtype3                            5
D12V9, multiclass
D12V10, binary
          cls
clus         0   1
  subtype1   1  44
  subtype2   9 171
  subtype3   8 156
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   44
  subtype2    9  171
  subtype3    8  156
     clus
vv    subtype1 subtype2 subtype3
  NO         1        9        8
  YES       44      171      156
D12V11, continuous
D12V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  33   1   0   1
  subtype2 120   2   0   7
  subtype3 103   5   1   7
D12V13, multiclass
> q(save="no")
