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

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/LUAD-TP/4469912/LUAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/LUAD-TP/4397267/LUAD-TP.clin.merged.picked.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/GDAC_clinicalDataPicker/LUAD-TP/4397267/LUAD-TP.clin.merged.picked.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/LUAD-TP/4469912/LUAD-TP.mergedcluster.txt"

nPatients in clinical file=456, in cluster file=498, common to both=454
[1]  12 454
[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 
180 183  87 
  1   2   3 
180 183  87 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
132 127 132 
  1   2   3 
132 127 132 
[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 
136 154 145 
  1   2   3 
136 154 145 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
112 187 136 
  1   2   3 
112 187 136 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
157 220  70 
  1   2   3 
157 220  70 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 48 237 162 
  1   2   3 
 48 237 162 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
137 176  71 
  1   2   3 
137 176  71 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3 
 44 179 161 
  1   2   3 
 44 179 161 
[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] "BATCHNUMBER"                           

Input Data has 21 rows and 454 columns.

[1] "Batch" "21"   
[1] "Last Follow UP"
TCGA-05-4244 TCGA-05-4249 TCGA-05-4250 TCGA-05-4382 TCGA-05-4384 TCGA-05-4389 
          NA         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          667         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          715          189          722          417 
TCGA-44-5644 TCGA-44-5645 TCGA-44-6144 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 
         498          383          407          328          302          845 
TCGA-44-6148 TCGA-44-6774 TCGA-44-6775 TCGA-44-6776 TCGA-44-6777 TCGA-44-6778 
         362          165          370         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          531          535          719          385           98 
TCGA-44-8120 TCGA-44-A479 TCGA-44-A47A TCGA-44-A47B TCGA-44-A47F TCGA-44-A47G 
         260          392          202          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-55-7725 
          34           NA            4           95           40           39 
TCGA-55-7726 TCGA-55-7727 TCGA-55-7728 TCGA-55-7815 TCGA-55-7816 TCGA-55-7903 
          31           31           24           54           31           19 
TCGA-55-7907 TCGA-55-7910 TCGA-55-7911 TCGA-55-7914 TCGA-55-7994 TCGA-55-7995 
          16          197           21            3           31            5 
TCGA-55-8085 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8091 TCGA-55-8092 
          33           21           92            6           43           26 
TCGA-55-8094 TCGA-55-8096 TCGA-55-8097 TCGA-55-8204 TCGA-55-8206 TCGA-55-8207 
           4           47           15           NA           46           66 
TCGA-55-8299 TCGA-55-8301 TCGA-55-8302 TCGA-55-8505 TCGA-55-8506 TCGA-55-8507 
         215           43           22           29           11           NA 
TCGA-55-8510 TCGA-55-8511 TCGA-55-8512 TCGA-55-8513 TCGA-55-8514 TCGA-55-8615 
         227            9            3          146          212           15 
TCGA-55-8616 TCGA-55-8619 TCGA-55-8620 TCGA-55-8621 TCGA-55-A48X TCGA-55-A48Y 
          48           49           65          105           33           31 
TCGA-55-A48Z TCGA-55-A490 TCGA-55-A491 TCGA-55-A492 TCGA-55-A493 TCGA-55-A494 
          29           48           NA            1           28            5 
TCGA-55-A4DF TCGA-55-A4DG TCGA-62-8394 TCGA-62-8395 TCGA-62-8397 TCGA-62-8398 
          47          161           NA          705          940           NA 
TCGA-62-8399 TCGA-62-8402 TCGA-62-A46O TCGA-62-A46P TCGA-62-A46R TCGA-62-A46S 
        2093         1444           NA           NA           NA           NA 
TCGA-62-A46U TCGA-62-A46V TCGA-62-A470 TCGA-62-A471 TCGA-62-A472 TCGA-64-1676 
        1708         1630           NA          882          540         1728 
TCGA-64-1677 TCGA-64-1678 TCGA-64-1679 TCGA-64-1680 TCGA-64-1681 TCGA-64-5774 
         628         1189         1685         1126           NA         2676 
TCGA-64-5775 TCGA-64-5778 TCGA-64-5779 TCGA-64-5781 TCGA-64-5815 TCGA-67-3770 
          62         1305          864         1559          865           30 
TCGA-67-3771 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 TCGA-67-4679 TCGA-67-6215 
         609          573          427          385           NA          173 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7760 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 
         140          422          202          186          690          414 
TCGA-69-7765 TCGA-69-7973 TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 
         165          230          184           70           89          382 
TCGA-69-8253 TCGA-69-8254 TCGA-69-8255 TCGA-69-A59K TCGA-71-6725 TCGA-73-4658 
          99           76          128          214           61         1599 
TCGA-73-4659 TCGA-73-4662 TCGA-73-4666 TCGA-73-4668 TCGA-73-4670 TCGA-73-4675 
         711          911          799          467          130           40 
TCGA-73-4676 TCGA-73-4677 TCGA-73-7498 TCGA-73-7499 TCGA-75-5122 TCGA-75-5125 
         164           38          621          519           NA           NA 
TCGA-75-5126 TCGA-75-5146 TCGA-75-5147 TCGA-75-6203 TCGA-75-6205 TCGA-75-6206 
          NA           NA           NA           NA           NA           NA 
TCGA-75-6207 TCGA-75-6211 TCGA-75-6212 TCGA-75-6214 TCGA-75-7025 TCGA-75-7027 
          NA           NA           NA           NA           NA           NA 
TCGA-75-7030 TCGA-75-7031 TCGA-78-7143 TCGA-78-7145 TCGA-78-7146 TCGA-78-7147 
          NA           NA           NA           NA           NA           NA 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7150 TCGA-78-7152 TCGA-78-7153 TCGA-78-7154 
          NA         1093           NA         1201          760           NA 
TCGA-78-7155 TCGA-78-7156 TCGA-78-7158 TCGA-78-7159 TCGA-78-7160 TCGA-78-7161 
          NA           NA           NA         1220          678          214 
TCGA-78-7162 TCGA-78-7163 TCGA-78-7166 TCGA-78-7167 TCGA-78-7220 TCGA-78-7535 
          NA         6812           NA           NA           NA           NA 
TCGA-78-7536 TCGA-78-7537 TCGA-78-7539 TCGA-78-7540 TCGA-78-7542 TCGA-78-7633 
          NA           NA          327          881           NA          994 
TCGA-78-8640 TCGA-78-8648 TCGA-78-8655 TCGA-78-8660 TCGA-78-8662 TCGA-80-5607 
        6345           NA         2360           NA           NA           NA 
TCGA-80-5608 TCGA-80-5611 TCGA-83-5908 TCGA-86-6562 TCGA-86-6851 TCGA-86-7701 
          NA           NA          823           NA           NA           11 
TCGA-86-7711 TCGA-86-7713 TCGA-86-7714 TCGA-86-7953 TCGA-86-7954 TCGA-86-7955 
         630          422           NA           34           NA          508 
TCGA-86-8054 TCGA-86-8055 TCGA-86-8056 TCGA-86-8073 TCGA-86-8074 TCGA-86-8075 
         745           10           NA           13           24           43 
TCGA-86-8076 TCGA-86-8278 TCGA-86-8279 TCGA-86-8280 TCGA-86-8281 TCGA-86-8358 
          26           23           21           16           NA           19 
TCGA-86-8359 TCGA-86-8585 TCGA-86-8668 TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 
          26           34           44           33           17           15 
TCGA-86-8673 TCGA-86-8674 TCGA-86-A456 TCGA-86-A4D0 TCGA-86-A4P7 TCGA-86-A4P8 
         454          404           10           30           13           39 
TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 
         323           NA           60          309           79          417 
TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 TCGA-91-6849 TCGA-91-7771 TCGA-91-8496 
         372          842          224           35          492          196 
TCGA-91-8497 TCGA-91-8499 TCGA-91-A4BC TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 
         173           36           44          218          297          127 
TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7567 TCGA-95-7944 TCGA-95-7947 
         185           34            2          163           21           40 
TCGA-95-7948 TCGA-95-A4VK TCGA-97-7546 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 
         132          123          963         1965         1932         1331 
TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 
         775          181           NA           22          106          181 
TCGA-97-8174 TCGA-97-8175 TCGA-97-8177 TCGA-97-8179 TCGA-99-7458 TCGA-99-8025 
          NA           86          146           15          392          427 
TCGA-99-8028 TCGA-99-8032 TCGA-99-8033 TCGA-J2-8192 TCGA-J2-8194 TCGA-J2-A4AD 
         458           44          169          153          113          287 
TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E5 TCGA-L4-A4E6 TCGA-L9-A443 TCGA-L9-A444 
         282          238          212           76          116            6 
TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SW TCGA-MP-A4SY 
         285          621          353           NA           NA           NA 
TCGA-MP-A4T2 TCGA-MP-A4T4 TCGA-MP-A4T6 TCGA-MP-A4T7 TCGA-MP-A4T8 TCGA-MP-A4T9 
          NA           NA           NA           NA           NA           NA 
TCGA-MP-A4TA TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TE TCGA-MP-A4TF TCGA-MP-A4TH 
          NA           NA           NA           NA           NA          142 
TCGA-MP-A4TI TCGA-MP-A4TJ TCGA-MP-A4TK TCGA-MP-A5C7 
          NA           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=264,	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=41,	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:'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 454 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 
140 254  39  18 
[1] "table(vv)"
vv
 T1  T2  T3  T4 
140 254  39  18 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T1  T2  T3  T4 
140 254  39  18 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 T1  T2  T3  T4 
140 254  39  18 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
288  85  68   2 
[1] "table(vv)"
vv
   N0    N1 N2+N3 
  288    85    70 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2  N3 
288  85  68   2 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   N0    N1 N2+N3 
  288    85    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        23.51        56.81 

$subtype3
TCGA-35-3615 TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 
        0.46        21.93        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        21.93        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        23.51         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    23.51 
[1] "20.0 - 48.6 (38.7)" "0.5 - 47.0 (18.8)"  "4.0 - 56.8 (23.5)" 
 [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 116  49
  subtype2 124  47
  subtype3  59  22
subtype1 subtype2 subtype3 
     165      171       81 
subtype1 subtype2 subtype3 
      49       47       22 
$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-44-4112 TCGA-44-5644 TCGA-44-6144 TCGA-44-6775 
       42.08         6.21        23.74        16.37        13.38        12.16 
TCGA-44-6777 TCGA-44-6779 TCGA-44-7662 TCGA-44-8117 TCGA-44-8120 TCGA-44-A4SU 
       32.45        16.41         7.17        12.66         8.55         2.50 
TCGA-49-4488 TCGA-49-4490 TCGA-49-4501 TCGA-49-4505 TCGA-49-4507 TCGA-49-4512 
       28.57        12.66        46.72        14.07         8.81         5.16 
TCGA-49-6761 TCGA-50-5045 TCGA-50-5930 TCGA-50-5933 TCGA-50-5944 TCGA-50-5946 
       11.64        71.47         9.27        77.88        25.12        22.55 
TCGA-50-6591 TCGA-50-6593 TCGA-50-6594 TCGA-50-6597 TCGA-53-7624 TCGA-55-1592 
        3.88        11.05        12.16        33.37        34.26        23.05 
TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-55-6543 TCGA-55-6712 TCGA-55-6972 
       38.73        48.62        45.17         0.07         0.79        48.49 
TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6985 TCGA-55-7283 
        7.76         2.20        45.34        32.71        40.54         1.12 
TCGA-55-7573 TCGA-55-7576 TCGA-55-7726 TCGA-55-7727 TCGA-55-7910 TCGA-55-7994 
        0.13         1.32         1.02         1.02         6.48         1.02 
TCGA-55-7995 TCGA-55-8091 TCGA-55-8096 TCGA-55-8207 TCGA-55-8302 TCGA-55-8506 
        0.16         1.41         1.55         2.17         0.72         0.36 
TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 TCGA-55-8616 TCGA-55-A48Z TCGA-55-A490 
        7.46         0.30         6.97         1.58         0.95         1.58 
TCGA-55-A4DG TCGA-62-8394 TCGA-62-8395 TCGA-62-8397 TCGA-62-8399 TCGA-62-8402 
        5.29         4.54        23.18        30.90        68.81        47.47 
TCGA-62-A46O TCGA-62-A46R TCGA-62-A46U TCGA-62-A472 TCGA-64-1676 TCGA-64-1678 
       47.77        56.68        56.15        17.75        56.81        39.09 
TCGA-64-1679 TCGA-64-1681 TCGA-64-5778 TCGA-67-3770 TCGA-67-3772 TCGA-67-6217 
       55.40        38.33        42.90         0.99        18.84        13.87 
TCGA-69-7760 TCGA-69-7979 TCGA-69-7980 TCGA-69-A59K TCGA-71-6725 TCGA-73-4662 
        6.64         2.93        12.56         7.04         2.01        29.95 
TCGA-73-4668 TCGA-73-4670 TCGA-73-7499 TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 
       15.35         4.27        17.06       163.10        27.16        19.27 
TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7161 TCGA-78-7163 TCGA-78-7535 
       21.86        19.50        38.50         7.04       223.96        31.20 
TCGA-78-7539 TCGA-78-7542 TCGA-78-8640 TCGA-78-8655 TCGA-78-8662 TCGA-83-5908 
       10.75        10.55       208.60        77.59       110.50        27.06 
TCGA-86-6562 TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-8054 TCGA-86-8055 
       12.36        20.71        13.87         1.12        24.49         0.33 
TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 TCGA-86-8280 TCGA-86-8358 TCGA-86-8359 
        0.79         1.41         0.69         0.53         0.62         0.85 
TCGA-86-8668 TCGA-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-95-7039 TCGA-95-7567 TCGA-95-7947 TCGA-95-A4VK TCGA-97-7546 TCGA-97-7554 
        1.12         5.36         1.32         4.04        31.66        25.48 
TCGA-97-7937 TCGA-97-7938 TCGA-97-8171 TCGA-97-8179 TCGA-99-8025 TCGA-J2-8192 
        5.95         0.59         3.48         0.49        14.04         5.03 
TCGA-J2-8194 TCGA-J2-A4AD TCGA-J2-A4AE TCGA-L4-A4E5 TCGA-MN-A4N1 TCGA-MN-A4N4 
        3.72         9.44         9.27         6.97         9.37        20.42 
TCGA-MN-A4N5 TCGA-MP-A4SW TCGA-MP-A4T2 TCGA-MP-A4T4 TCGA-MP-A4T6 TCGA-MP-A4T8 
       11.61        58.45        37.35        86.04        58.85         5.29 
TCGA-MP-A4TC TCGA-MP-A4TF TCGA-MP-A4TK 
        2.43        11.05        19.13 

$subtype2
TCGA-05-4249 TCGA-05-4382 TCGA-05-4384 TCGA-05-4396 TCGA-05-4397 TCGA-05-4403 
       50.07        19.92        14.01         9.96        24.03        19.00 
TCGA-05-4418 TCGA-05-4422 TCGA-05-4430 TCGA-05-4433 TCGA-05-4434 TCGA-05-5420 
        8.98        12.00        25.02        24.00        15.02        15.02 
TCGA-05-5429 TCGA-35-3615 TCGA-35-4122 TCGA-38-4626 TCGA-38-4627 TCGA-38-4630 
        0.99         0.46         7.36       120.79        37.71        35.28 
TCGA-38-7271 TCGA-38-A44F TCGA-44-2655 TCGA-44-2657 TCGA-44-2661 TCGA-44-2665 
       26.30         4.37        21.93        13.15        24.36        42.77 
TCGA-44-2666 TCGA-44-2668 TCGA-44-3396 TCGA-44-3398 TCGA-44-5645 TCGA-44-6145 
        3.19         8.09        37.15        38.24        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        12.89         6.64        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-50-5932 TCGA-50-5939 TCGA-50-5942 
       31.04        49.28         8.05        35.87        15.12        29.00 
TCGA-50-6590 TCGA-50-6592 TCGA-50-6595 TCGA-50-6673 TCGA-53-7626 TCGA-55-6642 
       42.31        25.51         6.21         0.72        30.54        32.61 
TCGA-55-6975 TCGA-55-6978 TCGA-55-6983 TCGA-55-6984 TCGA-55-6986 TCGA-55-6987 
        3.88         5.46        60.03        24.99        71.05        38.47 
TCGA-55-7281 TCGA-55-7574 TCGA-55-7725 TCGA-55-7728 TCGA-55-7815 TCGA-55-7911 
        0.59         3.12         1.28         0.79         1.78         0.69 
TCGA-55-7914 TCGA-55-8085 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8097 
        0.10         1.08         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        53.59        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-73-4677 TCGA-73-7498 TCGA-78-7148 TCGA-78-7152 
        2.50        52.57         1.25        20.42        20.58        39.48 
TCGA-78-7153 TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 
       24.99        32.09         5.88        22.29       104.15         8.48 
TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-78-8648 TCGA-78-8660 TCGA-86-8073 
       53.33        28.96        32.68        39.72        10.55         0.43 
TCGA-86-8076 TCGA-86-8278 TCGA-86-8671 TCGA-86-8672 TCGA-86-8674 TCGA-86-A456 
        0.85         0.76         0.56         0.49        13.28         0.33 
TCGA-86-A4P7 TCGA-86-A4P8 TCGA-91-6830 TCGA-91-6835 TCGA-91-6849 TCGA-91-8496 
        0.43         1.28         1.97         2.60         1.15         6.44 
TCGA-91-8497 TCGA-91-A4BC TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 TCGA-95-7944 
        5.69         1.45         7.17         9.76         4.18         0.69 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7941 TCGA-97-8172 TCGA-97-8174 
       64.60        63.52        43.76         0.72         5.95         5.36 
TCGA-97-8175 TCGA-97-8177 TCGA-99-7458 TCGA-99-8028 TCGA-J2-A4AG TCGA-L4-A4E6 
        2.83         4.80        12.89        15.06         7.82         2.50 
TCGA-MP-A4SY TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TA TCGA-MP-A4TD TCGA-MP-A4TH 
       49.35         5.49        41.59        31.20        10.09         4.67 
TCGA-MP-A4TI TCGA-MP-A4TJ TCGA-MP-A5C7 
       14.10        11.15        48.99 

$subtype3
TCGA-05-4250 TCGA-05-4389 TCGA-05-4390 TCGA-05-4415 TCGA-05-4417 TCGA-05-4424 
        3.98        45.01        37.02         2.96        14.93        30.02 
TCGA-05-4432 TCGA-35-5375 TCGA-38-4625 TCGA-38-4628 TCGA-44-3918 TCGA-44-5643 
       25.02         8.68        97.74        49.02        23.51        13.71 
TCGA-44-6147 TCGA-44-6774 TCGA-44-6778 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 
       27.78         5.42        36.49        10.68        18.31        18.87 
TCGA-44-7670 TCGA-44-8119 TCGA-44-A47B TCGA-49-4510 TCGA-50-5051 TCGA-50-5931 
       17.46         3.22         9.44        29.46        14.96         8.78 
TCGA-50-5935 TCGA-50-5936 TCGA-50-5941 TCGA-50-7109 TCGA-53-7813 TCGA-53-A4EZ 
       21.47         8.45        18.64         8.38        13.94         9.21 
TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 TCGA-55-7903 
        2.86        42.48        40.70        15.25         0.92         0.62 
TCGA-55-7907 TCGA-55-8092 TCGA-55-8094 TCGA-55-8615 TCGA-55-A494 TCGA-62-A46P 
        0.53         0.85         0.13         0.49         0.16        19.53 
TCGA-62-A470 TCGA-62-A471 TCGA-64-1677 TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 
       39.22        29.00        20.65        87.98         2.04        28.41 
TCGA-67-3771 TCGA-69-7764 TCGA-69-7973 TCGA-69-8255 TCGA-73-4659 TCGA-73-4666 
       20.02        13.61         7.56         4.21        23.38        26.27 
TCGA-73-4675 TCGA-73-4676 TCGA-78-7146 TCGA-78-7149 TCGA-78-7159 TCGA-78-7167 
        1.32         5.39         5.65        35.93        40.11        88.11 
TCGA-78-7220 TCGA-78-7536 TCGA-86-7701 TCGA-86-7955 TCGA-86-8585 TCGA-86-8669 
       26.53         8.02         0.36        16.70         1.12         1.08 
TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6831 TCGA-91-6840 TCGA-91-7771 TCGA-91-8499 
        0.99        10.62        10.16        12.23        16.18         1.18 
TCGA-93-8067 TCGA-95-7043 TCGA-95-7948 TCGA-99-8032 TCGA-99-8033 TCGA-L9-A443 
        6.08         0.07         4.34         1.45         5.56         3.81 
TCGA-L9-A444 TCGA-MP-A4SV TCGA-MP-A4TE 
        0.20        86.14        29.42 

subtype1 subtype2 subtype3 
    0.07     0.03     0.07 
subtype1 subtype2 subtype3 
  223.96   120.79    97.74 
subtype1 subtype2 subtype3 
   12.66    11.15    12.23 
[1] "0.1 - 224.0 (12.7)" "0.0 - 120.8 (11.2)" "0.1 - 97.7 (12.2)" 
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype2" "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" "subtype1"
 [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" "subtype1" "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" "subtype2" "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" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[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] "subtype3" "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] "subtype3" "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" "subtype1" "subtype2" "subtype1" "subtype2"
[385] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[391] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[397] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[403] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[409] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[415] "subtype2" "subtype1" "subtype2"
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype2" "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" "subtype1"
 [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" "subtype1" "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" "subtype2" "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" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[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] "subtype3" "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] "subtype3" "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" "subtype1" "subtype2" "subtype1" "subtype2"
[385] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[391] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[397] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[403] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[409] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[415] "subtype2" "subtype1" "subtype2"
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype2" "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" "subtype1"
 [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" "subtype1" "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" "subtype2" "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" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[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] "subtype3" "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] "subtype3" "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" "subtype1" "subtype2" "subtype1" "subtype2"
[385] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[391] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[397] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[403] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[409] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[415] "subtype2" "subtype1" "subtype2"
D3V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       2       34       55        20        29         26          5
  subtype2       0       55       52        16        26         22          3
  subtype3       1       22       23         7         9         17          3
          vv
clus       STAGE IV
  subtype1        9
  subtype2        8
  subtype3        5
D3V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  47 109  19   5
  subtype2  66  97  11   9
  subtype3  26  47   8   4
D3V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1 111  35    32
  subtype2 118  37    23
  subtype3  57  12    15
D3V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 124   8   1   0  45
  subtype2 129   5   0   2  45
  subtype3  58   5   0   1  23
D3V6, multiclass
D3V7, binary
          cls
clus         0   1
  subtype1 108  72
  subtype2  98  85
  subtype3  36  51
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  108   72
  subtype2   98   85
  subtype3   36   51
        clus
vv       subtype1 subtype2 subtype3
  FEMALE      108       98       36
  MALE         72       85       51
D3V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          7                                34
  subtype2                          3                                41
  subtype3                          3                                15
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                118
  subtype2                                                107
  subtype3                                                 63
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          2
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  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                            11
  subtype3                            0                             2
          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   8 175
  subtype3   7  80
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  175
  subtype2    8  175
  subtype3    7   80
     clus
vv    subtype1 subtype2 subtype3
  NO         5        8        7
  YES      175      175       80
D3V11, continuous
D3V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 127   5   1   7
  subtype2 124   4   2   6
  subtype3  56   1   1   5
D3V13, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 83 38
  subtype2 89 30
  subtype3 91 30
subtype1 subtype2 subtype3 
     121      119      121 
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        13.38        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        17.46        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        30.90        14.60        68.81        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        29.00        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         1.41 
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 
       23.51        23.74        16.37        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         6.64         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 
       23.18        19.53        56.68        56.15        53.59        17.75 
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         0.76 
TCGA-86-8279 TCGA-86-8672 TCGA-86-8673 TCGA-86-A456 TCGA-91-6828 TCGA-91-6836 
        0.69         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-99-8025 TCGA-J2-A4AE TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N1 
        2.83        14.04         9.27         6.97         0.20         9.37 
TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4SW TCGA-MP-A4SY TCGA-MP-A4T6 
       20.42        11.61        86.14        58.45        49.35        58.85 
TCGA-MP-A4T8 TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TE TCGA-MP-A4TK 
        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 
       13.71        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 
        5.42        12.16        32.45        36.49        12.03        12.89 
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         1.12         0.33         0.85 
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-99-7458 
       43.76         0.59         0.72         5.36         4.80        12.89 
TCGA-99-8028 TCGA-99-8033 TCGA-J2-8192 TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4T2 
       15.06         5.56         5.03         7.82         2.50        37.35 
TCGA-MP-A4T4 TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TA TCGA-MP-A4TH TCGA-MP-A4TI 
       86.04         5.49        41.59        31.20         4.67        14.10 
TCGA-MP-A4TJ 
       11.15 

subtype1 subtype2 subtype3 
    0.03     0.10     0.07 
subtype1 subtype2 subtype3 
  208.60   163.10   223.96 
subtype1 subtype2 subtype3 
   12.23    10.55     7.46 
[1] "0.0 - 208.6 (12.2)" "0.1 - 163.1 (10.6)" "0.1 - 224.0 (7.5)" 
  [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" "subtype1" "subtype3"
[331] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[337] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[349] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[355] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[361] "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" "subtype1" "subtype3"
[331] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[337] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[349] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[355] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[361] "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" "subtype1" "subtype3"
[331] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[337] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[349] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[355] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[361] "subtype1"
D4V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       2       33       34        11        19         21          5
  subtype2       1       19       47        13        22         17          3
  subtype3       0       44       33        16        13         19          1
          vv
clus       STAGE IV
  subtype1        7
  subtype2        5
  subtype3        5
D4V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 39 74 13  5
  subtype2 28 78 14  7
  subtype3 56 65  6  3
D4V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 85 21    25
  subtype2 83 27    16
  subtype3 83 23    19
D4V5, multiclass
          vv
clus       M0 M1 M1A M1B MX
  subtype1 93  5   1   2 31
  subtype2 83  4   0   0 38
  subtype3 80  3   0   1 46
D4V6, multiclass
D4V7, binary
          cls
clus        0  1
  subtype1 56 76
  subtype2 67 60
  subtype3 87 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   56   76
  subtype2   67   60
  subtype3   87   45
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       56       67       87
  MALE         76       60       45
D4V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          8                                32
  subtype2                          2                                29
  subtype3                          3                                14
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 76
  subtype2                                                 84
  subtype3                                                 87
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          1
  subtype3                                          3
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             4
  subtype2                                             5
  subtype3                                             9
          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                            2
  subtype2                            1
  subtype3                            4
D4V9, multiclass
D4V10, binary
          cls
clus         0   1
  subtype1   6 126
  subtype2   3 124
  subtype3   8 124
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  126
  subtype2    3  124
  subtype3    8  124
     clus
vv    subtype1 subtype2 subtype3
  NO         6        3        8
  YES      126      124      124
D4V11, continuous
D4V12, continuous
          vv
clus       R0 R1 R2 RX
  subtype1 87  1  0  5
  subtype2 88  5  0  5
  subtype3 81  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        23.51 
TCGA-44-3919 TCGA-44-5645 TCGA-44-6144 TCGA-44-6146 TCGA-44-6147 TCGA-44-6775 
        6.21        12.59        13.38         9.93        27.78        12.16 
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 
       13.71        16.37        10.78        11.90         5.42        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        17.46 
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         1.12 
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 
  15.070   16.885   17.060 
[1] "0.1 - 71.5 (15.1)"  "0.1 - 224.0 (16.9)" "0.4 - 97.7 (17.1)" 
  [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                                                 54
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          1
  subtype2                                          1
  subtype3                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             2
  subtype2                                             7
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  1
  subtype2                              0                                  1
  subtype3                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            1                             1
  subtype2                            0                             3
  subtype3                            1                             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  8 66
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   91
  subtype2    3   65
  subtype3    8   66
     clus
vv    subtype1 subtype2 subtype3
  NO         4        3        8
  YES       91       65       66
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 
       23.51         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 
       12.16        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        13.71        16.37 
TCGA-44-6144 TCGA-44-6145 TCGA-44-6774 TCGA-44-6778 TCGA-44-7662 TCGA-44-7667 
       13.38        10.78         5.42        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        17.46        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         1.12        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 
  17.885   17.325   14.930 
[1] "0.1 - 97.7 (17.9)"  "0.1 - 224.0 (17.3)" "0.4 - 88.0 (14.9)" 
  [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                                                 44
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          3
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             3
  subtype2                                             5
  subtype3                                             2
          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  5 55
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8   99
  subtype2    2   68
  subtype3    5   55
     clus
vv    subtype1 subtype2 subtype3
  NO         8        2        5
  YES       99       68       55
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 101  23
  subtype2  99  44
  subtype3  92  43
subtype1 subtype2 subtype3 
     124      143      135 
subtype1 subtype2 subtype3 
      23       44       43 
$subtype1
TCGA-05-4249 TCGA-05-4384 TCGA-05-4403 TCGA-05-4430 TCGA-05-4433 TCGA-05-4434 
       50.07        14.01        19.00        25.02        24.00        15.02 
TCGA-05-5423 TCGA-35-3615 TCGA-38-4626 TCGA-38-7271 TCGA-38-A44F TCGA-44-2655 
        4.96         0.46       120.79        26.30         4.37        21.93 
TCGA-44-2657 TCGA-44-2661 TCGA-44-2666 TCGA-44-3919 TCGA-44-5645 TCGA-44-6146 
       13.15        24.36         3.19         6.21        12.59         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-7659 TCGA-44-7671 TCGA-44-A47G 
       27.78        11.90        63.72        14.60        17.59         4.44 
TCGA-49-4486 TCGA-49-4501 TCGA-49-4510 TCGA-49-4512 TCGA-50-5055 TCGA-50-5068 
       76.21        46.72        29.46         5.16        25.81        49.28 
TCGA-50-5935 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 TCGA-50-6673 
       21.47        29.00        25.12        11.05        33.37         0.72 
TCGA-53-7626 TCGA-55-6543 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 
       30.54         0.07        60.03        24.99        40.54        71.05 
TCGA-55-7227 TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7725 TCGA-55-7727 
        2.01         1.12         0.13         3.12         1.28         1.02 
TCGA-55-7914 TCGA-55-8087 TCGA-55-8090 TCGA-55-8091 TCGA-55-8097 TCGA-55-8206 
        0.10         0.69         0.20         1.41         0.49         1.51 
TCGA-55-8207 TCGA-55-8512 TCGA-55-8513 TCGA-55-8514 TCGA-55-8616 TCGA-55-8619 
        2.17         0.10         4.80         6.97         1.58         1.61 
TCGA-55-8621 TCGA-55-A48X TCGA-55-A4DG TCGA-62-8395 TCGA-62-8397 TCGA-64-1680 
        3.45         1.08         5.29        23.18        30.90        37.02 
TCGA-64-1681 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 
       38.33         0.99        18.84        14.04        12.66         5.69 
TCGA-67-6217 TCGA-69-7763 TCGA-69-7764 TCGA-69-7974 TCGA-69-8253 TCGA-69-8254 
       13.87        22.68        13.61         6.05         3.25         2.50 
TCGA-73-4662 TCGA-73-4675 TCGA-73-4677 TCGA-73-7498 TCGA-73-7499 TCGA-78-7143 
       29.95         1.32         1.25        20.42        17.06       163.10 
TCGA-78-7147 TCGA-78-7152 TCGA-78-7158 TCGA-78-7162 TCGA-78-7163 TCGA-78-7167 
       19.27        39.48         5.88       104.15       223.96        88.11 
TCGA-78-7540 TCGA-86-8073 TCGA-86-8076 TCGA-86-8280 TCGA-86-8668 TCGA-86-8671 
       28.96         0.43         0.85         0.53         1.45         0.56 
TCGA-86-A456 TCGA-86-A4P7 TCGA-86-A4P8 TCGA-91-6835 TCGA-91-6849 TCGA-91-8496 
        0.33         0.43         1.28         2.60         1.15         6.44 
TCGA-91-8497 TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 TCGA-95-7947 TCGA-97-7546 
        5.69         7.17         9.76         4.18         1.32        31.66 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 TCGA-97-8172 
       64.60        63.52        43.76         0.59         0.72         5.95 
TCGA-97-8174 TCGA-97-8177 TCGA-97-8179 TCGA-99-7458 TCGA-99-8025 TCGA-J2-8194 
        5.36         4.80         0.49        12.89        14.04         3.72 
TCGA-J2-A4AE TCGA-L4-A4E6 TCGA-L9-A443 TCGA-MP-A4SW 
        9.27         2.50         3.81        58.45 

$subtype2
TCGA-05-4250 TCGA-05-4382 TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4425 
        3.98        19.92        47.05         8.02        20.05        21.99 
TCGA-05-4426 TCGA-05-4427 TCGA-05-5428 TCGA-35-4122 TCGA-35-4123 TCGA-38-4625 
       26.01        26.01        22.03         7.36         5.95        97.74 
TCGA-38-4627 TCGA-38-4628 TCGA-38-4629 TCGA-38-4632 TCGA-38-6178 TCGA-44-2656 
       37.71        49.02        28.37        44.61        14.73        46.98 
TCGA-44-2659 TCGA-44-2662 TCGA-44-2665 TCGA-44-2668 TCGA-44-3396 TCGA-44-3398 
       44.94        42.08        42.77         8.09        37.15        38.24 
TCGA-44-3918 TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 TCGA-44-6779 TCGA-44-7661 
       23.51        23.74        12.16        32.45        16.41        12.03 
TCGA-44-7662 TCGA-44-7672 TCGA-44-8117 TCGA-44-8120 TCGA-44-A47A TCGA-44-A47B 
        7.17        23.64        12.66         8.55         6.64         9.44 
TCGA-44-A4SU TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4505 TCGA-49-6744 
        2.50        28.57        12.66        35.54        14.07        29.26 
TCGA-49-6745 TCGA-49-6761 TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5066 
       17.13        11.64        20.48        71.47        70.55        31.04 
TCGA-50-5933 TCGA-50-5941 TCGA-50-5946 TCGA-50-6590 TCGA-50-6594 TCGA-50-6595 
       77.88        18.64        22.55        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-55-7726 TCGA-55-7903 TCGA-55-7907 
       32.71         0.59         1.32         1.02         0.62         0.53 
TCGA-55-7911 TCGA-55-7994 TCGA-55-8089 TCGA-55-8096 TCGA-55-8299 TCGA-55-8301 
        0.69         1.02         3.02         1.55         7.07         1.41 
TCGA-55-8302 TCGA-55-8506 TCGA-55-8510 TCGA-55-8511 TCGA-55-A48Z TCGA-55-A493 
        0.72         0.36         7.46         0.30         0.95         0.92 
TCGA-62-8394 TCGA-62-A46R TCGA-62-A46U TCGA-62-A46V TCGA-62-A472 TCGA-64-1676 
        4.54        56.68        56.15        53.59        17.75        56.81 
TCGA-64-1677 TCGA-64-1679 TCGA-64-5775 TCGA-64-5778 TCGA-64-5781 TCGA-64-5815 
       20.65        55.40         2.04        42.90        51.25        28.44 
TCGA-67-6216 TCGA-69-7760 TCGA-69-7765 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 
        4.60         6.64         5.42         2.30         2.93        12.56 
TCGA-71-6725 TCGA-73-4658 TCGA-73-4666 TCGA-73-4668 TCGA-73-4676 TCGA-78-7145 
        2.01        52.57        26.27        15.35         5.39        27.16 
TCGA-78-7146 TCGA-78-7535 TCGA-78-7542 TCGA-78-8648 TCGA-78-8655 TCGA-78-8660 
        5.65        31.20        10.55        39.72        77.59        10.55 
TCGA-83-5908 TCGA-86-6562 TCGA-86-7711 TCGA-86-7953 TCGA-86-8055 TCGA-86-8074 
       27.06        12.36        20.71         1.12         0.33         0.79 
TCGA-86-8075 TCGA-86-8278 TCGA-86-8279 TCGA-86-8673 TCGA-91-6829 TCGA-91-6836 
        1.41         0.76         0.69        14.93        41.33        13.71 
TCGA-91-6847 TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-95-7948 TCGA-97-7554 
       27.68         7.36         1.12         5.36         4.34        25.48 
TCGA-97-7937 TCGA-97-8175 TCGA-99-8028 TCGA-J2-8192 TCGA-J2-A4AD TCGA-J2-A4AG 
        5.95         2.83        15.06         5.03         9.44         7.82 
TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MN-A4N5 TCGA-MP-A4SV 
        6.97         0.20         9.37        20.42        11.61        86.14 
TCGA-MP-A4SY TCGA-MP-A4T9 TCGA-MP-A4TC TCGA-MP-A4TI TCGA-MP-A4TK 
       49.35        41.59         2.43        14.10        19.13 

$subtype3
TCGA-05-4389 TCGA-05-4390 TCGA-05-4396 TCGA-05-4397 TCGA-05-4415 TCGA-05-4417 
       45.01        37.02         9.96        24.03         2.96        14.93 
TCGA-05-4418 TCGA-05-4420 TCGA-05-4422 TCGA-05-4424 TCGA-05-4432 TCGA-05-5420 
        8.98        29.95        12.00        30.02        25.02        15.02 
TCGA-05-5425 TCGA-05-5429 TCGA-05-5715 TCGA-35-5375 TCGA-38-4630 TCGA-38-4631 
       28.96         0.99         2.04         8.68        35.28        11.64 
TCGA-44-5643 TCGA-44-5644 TCGA-44-6145 TCGA-44-6774 TCGA-44-6778 TCGA-44-7660 
       13.71        16.37        10.78         5.42        36.49        10.68 
TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 TCGA-44-8119 TCGA-44-A479 TCGA-44-A4SS 
       18.31        18.87        17.46         3.22        12.89         3.75 
TCGA-49-4487 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 
       28.11        32.84         8.81        55.89        15.02        12.13 
TCGA-50-5051 TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5932 TCGA-50-5936 
       14.96         8.05         9.27         8.78        35.87         8.45 
TCGA-50-5939 TCGA-50-6591 TCGA-50-6592 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 
       15.12         3.88        25.51         8.38        34.26        13.94 
TCGA-53-A4EZ TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-55-5899 TCGA-55-6642 
        9.21        23.05        38.73        45.17         2.86        32.61 
TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 TCGA-55-6972 TCGA-55-6975 
       42.48        40.70        15.25         0.92        48.49         3.88 
TCGA-55-6987 TCGA-55-7728 TCGA-55-7815 TCGA-55-7910 TCGA-55-7995 TCGA-55-8085 
       38.47         0.79         1.78         6.48         0.16         1.08 
TCGA-55-8092 TCGA-55-8094 TCGA-55-8505 TCGA-55-8615 TCGA-55-8620 TCGA-55-A492 
        0.85         0.13         0.95         0.49         2.14         0.03 
TCGA-55-A494 TCGA-55-A4DF TCGA-62-8398 TCGA-62-8399 TCGA-62-8402 TCGA-62-A46O 
        0.16         1.55        14.60        68.81        47.47        47.77 
TCGA-62-A46P TCGA-62-A470 TCGA-62-A471 TCGA-64-1678 TCGA-64-5774 TCGA-64-5779 
       19.53        39.22        29.00        39.09        87.98        28.41 
TCGA-67-3771 TCGA-69-7761 TCGA-69-7973 TCGA-69-8255 TCGA-73-4659 TCGA-73-4670 
       20.02         6.12         7.56         4.21        23.38         4.27 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7150 TCGA-78-7153 TCGA-78-7154 TCGA-78-7155 
       20.58        35.93        21.86        24.99        19.50        38.50 
TCGA-78-7156 TCGA-78-7159 TCGA-78-7160 TCGA-78-7161 TCGA-78-7166 TCGA-78-7220 
       32.09        40.11        22.29         7.04         8.48        26.53 
TCGA-78-7536 TCGA-78-7537 TCGA-78-7539 TCGA-78-7633 TCGA-78-8640 TCGA-78-8662 
        8.02        53.33        10.75        32.68       208.60       110.50 
TCGA-86-7701 TCGA-86-7713 TCGA-86-7955 TCGA-86-8054 TCGA-86-8358 TCGA-86-8359 
        0.36        13.87        16.70        24.49         0.62         0.85 
TCGA-86-8585 TCGA-86-8669 TCGA-86-8672 TCGA-86-8674 TCGA-86-A4D0 TCGA-91-6828 
        1.12         1.08         0.49        13.28         0.99        10.62 
TCGA-91-6830 TCGA-91-6831 TCGA-91-6840 TCGA-91-7771 TCGA-91-8499 TCGA-91-A4BC 
        1.97        10.16        12.23        16.18         1.18         1.45 
TCGA-93-8067 TCGA-95-7043 TCGA-95-7944 TCGA-97-8171 TCGA-99-8032 TCGA-99-8033 
        6.08         0.07         0.69         3.48         1.45         5.56 
TCGA-MP-A4T7 TCGA-MP-A4T8 TCGA-MP-A4TA 
        5.49         5.29        31.20 

subtype1 subtype2 subtype3 
    0.07     0.20     0.03 
subtype1 subtype2 subtype3 
  223.96    97.74   208.60 
subtype1 subtype2 subtype3 
    8.22    12.66    12.89 
[1] "0.1 - 224.0 (8.2)"  "0.2 - 97.7 (12.7)"  "0.0 - 208.6 (12.9)"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [37] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [61] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[133] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[181] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[187] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[229] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[235] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[241] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[247] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[253] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[259] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[265] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[271] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[283] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[289] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[295] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[301] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[307] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[313] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[319] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[325] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[331] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[343] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[349] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[355] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[367] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[373] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[379] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[385] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[391] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[397] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [37] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [61] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[133] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[181] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[187] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[229] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[235] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[241] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[247] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[253] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[259] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[265] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[271] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[283] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[289] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[295] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[301] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[307] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[313] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[319] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[325] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[331] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[343] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[349] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[355] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[367] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[373] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[379] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[385] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[391] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[397] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [37] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [61] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[133] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[181] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[187] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[217] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[229] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[235] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[241] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[247] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[253] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[259] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[265] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[271] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[283] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[289] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[295] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[301] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[307] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[313] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[319] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[325] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[331] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[343] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[349] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[355] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[367] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[373] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[379] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[385] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[391] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[397] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
D7V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       47       39        10        17         16          1
  subtype2       2       30       48        17        24         21          6
  subtype3       1       30       41        12        20         26          4
          vv
clus       STAGE IV
  subtype1        5
  subtype2        6
  subtype3       11
D7V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 57 62 13  4
  subtype2 41 93 12  8
  subtype3 36 88 13  6
D7V4, multiclass
          vv
clus       N0 N1 N2+N3
  subtype1 95 21    15
  subtype2 90 38    24
  subtype3 90 24    28
D7V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  90   4   0   1  39
  subtype2 105   5   0   0  43
  subtype3 103   9   1   2  29
D7V6, multiclass
D7V7, binary
          cls
clus        0  1
  subtype1 89 47
  subtype2 92 62
  subtype3 53 92
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   89   47
  subtype2   92   62
  subtype3   53   92
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       89       92       53
  MALE         47       62       92
D7V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          6                                29
  subtype2                          2                                27
  subtype3                          5                                32
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 73
  subtype2                                                112
  subtype3                                                 92
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          4
  subtype2                                          0
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            11
  subtype2                                             5
  subtype3                                             2
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              1                                  2
  subtype3                              1                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             7
  subtype2                            0                             2
  subtype3                            0                             8
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             2
  subtype3                                             2
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            3
  subtype2                            1
  subtype3                            3
D7V9, multiclass
D7V10, binary
          cls
clus         0   1
  subtype1   6 130
  subtype2   6 148
  subtype3   8 137
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  130
  subtype2    6  148
  subtype3    8  137
     clus
vv    subtype1 subtype2 subtype3
  NO         6        6        8
  YES      130      148      137
D7V11, continuous
D7V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  92   3   2   7
  subtype2 104   3   2   5
  subtype3 101   4   0   3
D7V13, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1  70  34
  subtype2 135  35
  subtype3  87  41
subtype1 subtype2 subtype3 
     104      170      128 
subtype1 subtype2 subtype3 
      34       35       41 
$subtype1
TCGA-05-4250 TCGA-05-4398 TCGA-05-4405 TCGA-05-4427 TCGA-05-5428 TCGA-35-4122 
        3.98        47.05        20.05        26.01        22.03         7.36 
TCGA-35-4123 TCGA-38-4625 TCGA-38-4628 TCGA-38-4629 TCGA-38-4632 TCGA-38-6178 
        5.95        97.74        49.02        28.37        44.61        14.73 
TCGA-44-2656 TCGA-44-2662 TCGA-44-2665 TCGA-44-2668 TCGA-44-3396 TCGA-44-3918 
       46.98        42.08        42.77         8.09        37.15        23.51 
TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 TCGA-44-7661 TCGA-44-7662 TCGA-44-8117 
       23.74        12.16        32.45        12.03         7.17        12.66 
TCGA-44-A47B TCGA-44-A4SU TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4505 
        9.44         2.50        28.57        12.66        35.54        14.07 
TCGA-49-6745 TCGA-49-6761 TCGA-50-5044 TCGA-50-5066 TCGA-50-5933 TCGA-50-5941 
       17.13        11.64        20.48        31.04        77.88        18.64 
TCGA-50-6590 TCGA-50-6594 TCGA-50-6595 TCGA-55-1595 TCGA-55-6712 TCGA-55-6978 
       42.31        12.16         6.21        48.62         0.79         5.46 
TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-7576 TCGA-55-7726 TCGA-55-7727 
        7.76         2.20        45.34         1.32         1.02         1.02 
TCGA-55-7903 TCGA-55-7911 TCGA-55-7994 TCGA-55-8096 TCGA-55-8301 TCGA-55-8302 
        0.62         0.69         1.02         1.55         1.41         0.72 
TCGA-55-8506 TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 TCGA-55-A48Z TCGA-55-A493 
        0.36         7.46         0.30         6.97         0.95         0.92 
TCGA-62-8394 TCGA-62-A46U TCGA-62-A472 TCGA-64-1676 TCGA-64-1679 TCGA-64-5775 
        4.54        56.15        17.75        56.81        55.40         2.04 
TCGA-64-5815 TCGA-69-7760 TCGA-69-7765 TCGA-69-7978 TCGA-71-6725 TCGA-73-4658 
       28.44         6.64         5.42         2.30         2.01        52.57 
TCGA-73-4666 TCGA-73-4668 TCGA-73-4676 TCGA-78-7145 TCGA-78-7146 TCGA-78-7535 
       26.27        15.35         5.39        27.16         5.65        31.20 
TCGA-78-7542 TCGA-78-8655 TCGA-78-8660 TCGA-83-5908 TCGA-86-6562 TCGA-86-8055 
       10.55        77.59        10.55        27.06        12.36         0.33 
TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 TCGA-86-8673 TCGA-91-6836 TCGA-91-6848 
        0.79         1.41         0.69        14.93        13.71         7.36 
TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-97-8175 TCGA-J2-8192 
        1.12         5.36        25.48         5.95         2.83         5.03 
TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N5 TCGA-MP-A4SV TCGA-MP-A4T9 TCGA-MP-A4TC 
        6.97         0.20        11.61        86.14        41.59         2.43 
TCGA-MP-A4TI TCGA-MP-A4TK 
       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-05-4426 TCGA-05-4430 TCGA-05-4433 TCGA-05-4434 TCGA-05-5423 TCGA-05-5429 
       26.01        25.02        24.00        15.02         4.96         0.99 
TCGA-05-5715 TCGA-35-3615 TCGA-38-4626 TCGA-38-4627 TCGA-38-7271 TCGA-38-A44F 
        2.04         0.46       120.79        37.71        26.30         4.37 
TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 TCGA-44-3398 
       21.93        13.15        44.94        24.36         3.19        38.24 
TCGA-44-3919 TCGA-44-5643 TCGA-44-5645 TCGA-44-6146 TCGA-44-6147 TCGA-44-6148 
        6.21        13.71        12.59         9.93        27.78        11.90 
TCGA-44-6776 TCGA-44-7659 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-44-A47A 
       63.72        14.60        17.46        17.59        23.64         6.64 
TCGA-44-A47G TCGA-49-4486 TCGA-49-4487 TCGA-49-4501 TCGA-49-4510 TCGA-49-4512 
        4.44        76.21        28.11        46.72        29.46         5.16 
TCGA-49-6744 TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 
       29.26        71.47        70.55        25.81        49.28        35.87 
TCGA-50-5935 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 TCGA-50-6673 
       21.47        29.00        25.12        11.05        33.37         0.72 
TCGA-53-7626 TCGA-55-6543 TCGA-55-6971 TCGA-55-6972 TCGA-55-6982 TCGA-55-6983 
       30.54         0.07         0.92        48.49        32.71        60.03 
TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 TCGA-55-6987 TCGA-55-7227 TCGA-55-7281 
       24.99        40.54        71.05        38.47         2.01         0.59 
TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7725 TCGA-55-7728 TCGA-55-7907 
        1.12         0.13         3.12         1.28         0.79         0.53 
TCGA-55-7914 TCGA-55-8085 TCGA-55-8087 TCGA-55-8090 TCGA-55-8091 TCGA-55-8097 
        0.10         1.08         0.69         0.20         1.41         0.49 
TCGA-55-8206 TCGA-55-8207 TCGA-55-8299 TCGA-55-8512 TCGA-55-8513 TCGA-55-8616 
        1.51         2.17         7.07         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        23.18 
TCGA-62-8397 TCGA-62-A46R TCGA-62-A46V TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 
       30.90        56.68        53.59        37.02        38.33        42.90 
TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 
        0.99        18.84        14.04        12.66         5.69         4.60 
TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7974 TCGA-69-7979 
       13.87         6.12        22.68        13.61         6.05         2.93 
TCGA-69-8253 TCGA-69-8254 TCGA-73-4662 TCGA-73-4675 TCGA-73-4677 TCGA-73-7498 
        3.25         2.50        29.95         1.32         1.25        20.42 
TCGA-73-7499 TCGA-78-7143 TCGA-78-7147 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 
       17.06       163.10        19.27        35.93        39.48        24.99 
TCGA-78-7156 TCGA-78-7158 TCGA-78-7162 TCGA-78-7163 TCGA-78-7167 TCGA-78-7537 
       32.09         5.88       104.15       223.96        88.11        53.33 
TCGA-78-7539 TCGA-78-7540 TCGA-78-7633 TCGA-78-8648 TCGA-86-8076 TCGA-86-8278 
       10.75        28.96        32.68        39.72         0.85         0.76 
TCGA-86-8280 TCGA-86-8668 TCGA-86-8671 TCGA-86-8674 TCGA-86-A456 TCGA-86-A4P7 
        0.53         1.45         0.56        13.28         0.33         0.43 
TCGA-86-A4P8 TCGA-91-6835 TCGA-91-6849 TCGA-91-7771 TCGA-91-8496 TCGA-91-8497 
        1.28         2.60         1.15        16.18         6.44         5.69 
TCGA-91-A4BD TCGA-93-7347 TCGA-93-7348 TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 
        7.17         9.76         4.18         1.32         4.34        31.66 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 TCGA-97-8171 
       64.60        63.52        43.76         0.59         0.72         3.48 
TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 TCGA-97-8179 TCGA-99-7458 TCGA-99-8025 
        5.95         5.36         4.80         0.49        12.89        14.04 
TCGA-99-8028 TCGA-J2-8194 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-L9-A443 
       15.06         3.72         9.27         7.82         2.50         3.81 
TCGA-MP-A4SW TCGA-MP-A4SY 
       58.45        49.35 

$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-05-5420 
       14.93         8.98        29.95        30.02        25.02        15.02 
TCGA-05-5425 TCGA-35-5375 TCGA-38-4630 TCGA-38-4631 TCGA-44-5644 TCGA-44-6145 
       28.96         8.68        35.28        11.64        16.37        10.78 
TCGA-44-6774 TCGA-44-6778 TCGA-44-6779 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 
        5.42        36.49        16.41        10.68        18.31        18.87 
TCGA-44-8119 TCGA-44-8120 TCGA-44-A479 TCGA-44-A4SS TCGA-49-4506 TCGA-49-4507 
        3.22         8.55        12.89         3.75        32.84         8.81 
TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-50-5051 TCGA-50-5072 TCGA-50-5930 
       55.89        15.02        12.13        14.96         8.05         9.27 
TCGA-50-5931 TCGA-50-5936 TCGA-50-5939 TCGA-50-5946 TCGA-50-6591 TCGA-50-6592 
        8.78         8.45        15.12        22.55         3.88        25.51 
TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-53-A4EZ TCGA-55-1592 TCGA-55-1594 
        8.38        34.26        13.94         9.21        23.05        38.73 
TCGA-55-1596 TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 
       45.17         2.86        32.61        42.48        40.70        15.25 
TCGA-55-6975 TCGA-55-7815 TCGA-55-7910 TCGA-55-7995 TCGA-55-8089 TCGA-55-8092 
        3.88         1.78         6.48         0.16         3.02         0.85 
TCGA-55-8094 TCGA-55-8505 TCGA-55-8615 TCGA-55-8620 TCGA-55-A494 TCGA-55-A4DF 
        0.13         0.95         0.49         2.14         0.16         1.55 
TCGA-62-8398 TCGA-62-8399 TCGA-62-8402 TCGA-62-A46O TCGA-62-A46P TCGA-62-A470 
       14.60        68.81        47.47        47.77        19.53        39.22 
TCGA-62-A471 TCGA-64-1677 TCGA-64-1678 TCGA-64-5774 TCGA-64-5779 TCGA-64-5781 
       29.00        20.65        39.09        87.98        28.41        51.25 
TCGA-67-3771 TCGA-69-7973 TCGA-69-7980 TCGA-69-8255 TCGA-73-4659 TCGA-73-4670 
       20.02         7.56        12.56         4.21        23.38         4.27 
TCGA-78-7148 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 TCGA-78-7160 
       20.58        21.86        19.50        38.50        40.11        22.29 
TCGA-78-7161 TCGA-78-7166 TCGA-78-7220 TCGA-78-7536 TCGA-78-8640 TCGA-78-8662 
        7.04         8.48        26.53         8.02       208.60       110.50 
TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 
        0.36        20.71        13.87         1.12        16.70        24.49 
TCGA-86-8073 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 TCGA-86-8669 TCGA-86-8672 
        0.43         0.62         0.85         1.12         1.08         0.49 
TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6840 
        0.99        10.62        41.33         1.97        10.16        12.23 
TCGA-91-6847 TCGA-91-8499 TCGA-91-A4BC TCGA-93-8067 TCGA-95-7043 TCGA-95-7944 
       27.68         1.18         1.45         6.08         0.07         0.69 
TCGA-99-8032 TCGA-99-8033 TCGA-J2-A4AD TCGA-MN-A4N1 TCGA-MN-A4N4 TCGA-MP-A4T7 
        1.45         5.56         9.44         9.37        20.42         5.49 
TCGA-MP-A4T8 TCGA-MP-A4TA 
        5.29        31.20 

subtype1 subtype2 subtype3 
    0.20     0.03     0.07 
subtype1 subtype2 subtype3 
   97.74   223.96   208.60 
subtype1 subtype2 subtype3 
  11.835   12.625   12.725 
[1] "0.2 - 97.7 (11.8)"  "0.0 - 224.0 (12.6)" "0.1 - 208.6 (12.7)"
  [1] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "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" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "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" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[229] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[235] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[271] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[277] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[283] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[289] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[307] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[313] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[319] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[325] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[343] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[349] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[355] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[361] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[367] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[373] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[379] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[385] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[391] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[397] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
  [1] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "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" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "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" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[229] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[235] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[271] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[277] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[283] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[289] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[307] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[313] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[319] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[325] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[343] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[349] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[355] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[361] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[367] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[373] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[379] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[385] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[391] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[397] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
  [1] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "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" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "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" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[217] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[229] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[235] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[241] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[253] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[271] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[277] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[283] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[289] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[295] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[307] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[313] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[319] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[325] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[331] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[343] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[349] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[355] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[361] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[367] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[373] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[379] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[385] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[391] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[397] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
D8V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       1       16       35        12        18         21          5
  subtype2       0       62       56        16        24         17          3
  subtype3       2       29       37        11        19         25          3
          vv
clus       STAGE IV
  subtype1        4
  subtype2        8
  subtype3       10
D8V3, multiclass
          vv
clus       T1 T2 T3 T4
  subtype1 27 67 11  7
  subtype2 71 93 16  7
  subtype3 36 83 11  4
D8V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  61  27    23
  subtype2 130  34    17
  subtype3  84  22    27
D8V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  75   3   0   0  33
  subtype2 128   6   1   1  49
  subtype3  95   9   0   2  29
D8V6, multiclass
D8V7, binary
          cls
clus         0   1
  subtype1  64  48
  subtype2 119  68
  subtype3  51  85
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   64   48
  subtype2  119   68
  subtype3   51   85
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       64      119       51
  MALE         48       68       85
D8V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          1                                16
  subtype2                          8                                44
  subtype3                          4                                28
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 87
  subtype2                                                100
  subtype3                                                 90
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          4
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             2
  subtype2                                            12
  subtype3                                             4
          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                            11
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             3
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            5
  subtype3                            2
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   4 108
  subtype2   9 178
  subtype3   7 129
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  108
  subtype2    9  178
  subtype3    7  129
     clus
vv    subtype1 subtype2 subtype3
  NO         4        9        7
  YES      108      178      129
D8V11, continuous
D8V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  76   2   1   3
  subtype2 129   4   2   7
  subtype3  92   4   1   5
D8V13, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 109  37
  subtype2 149  55
  subtype3  40  24
subtype1 subtype2 subtype3 
     146      204       64 
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        21.93        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        23.18 
TCGA-62-8397 TCGA-62-8399 TCGA-62-A46V TCGA-62-A472 TCGA-64-1680 TCGA-64-1681 
       30.90        68.81        53.59        17.75        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 
        0.85         0.76         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-99-7458 TCGA-99-8028 
        0.59         5.36         2.83         0.49        12.89        15.06 
TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4SY TCGA-MP-A4T7 TCGA-MP-A4TH 
        9.27         7.82         2.50        49.35         5.49         4.67 
TCGA-MP-A4TJ TCGA-MP-A4TK 
       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 
       23.51        13.71        16.37        10.68        18.31        17.46 
TCGA-44-8117 TCGA-44-8119 TCGA-44-A479 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4488 
       12.66         3.22        12.89         6.64         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        56.15        39.22        29.00        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         1.12 
TCGA-86-7955 TCGA-86-8054 TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 TCGA-86-8358 
       16.70        24.49         0.43         1.41         0.69         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 
       13.38        27.78         5.42        12.16        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-J2-8192 TCGA-L9-A443 TCGA-MP-A4T2 TCGA-MP-A4T6 
        5.95         4.80         5.03         3.81        37.35        58.85 
TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TF TCGA-MP-A4TI 
        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 
  12.775   11.820   11.900 
[1] "0.0 - 163.1 (12.8)" "0.1 - 208.6 (11.8)" "0.1 - 224.0 (11.9)"
  [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" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[385] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[391] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[403] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[409] "subtype3" "subtype1" "subtype3" "subtype1" "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" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[385] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[391] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[403] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[409] "subtype3" "subtype1" "subtype3" "subtype1" "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" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[385] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[391] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
[403] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[409] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
D9V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       53       35        14        23         20          2
  subtype2       2       45       74        20        30         31          8
  subtype3       1       12       21         9         9         15          1
          vv
clus       STAGE IV
  subtype1        9
  subtype2       10
  subtype3        2
D9V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  61  74  15   7
  subtype2  55 134  19  10
  subtype3  22  41   5   1
D9V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  96  36    19
  subtype2 147  35    35
  subtype3  40  12    16
D9V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 109   7   0   1  38
  subtype2 156   8   1   2  52
  subtype3  43   1   0   0  25
D9V6, multiclass
D9V7, binary
          cls
clus         0   1
  subtype1  88  69
  subtype2 114 106
  subtype3  38  32
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   88   69
  subtype2  114  106
  subtype3   38   32
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       88      114       38
  MALE         69      106       32
D9V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                34
  subtype2                          8                                50
  subtype3                          0                                 5
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 88
  subtype2                                                142
  subtype3                                                 57
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          3
  subtype2                                          0
  subtype3                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            11
  subtype2                                             5
  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                            4
  subtype2                            1
  subtype3                            2
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1   7 150
  subtype2   9 211
  subtype3   3  67
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  150
  subtype2    9  211
  subtype3    3   67
     clus
vv    subtype1 subtype2 subtype3
  NO         7        9        3
  YES      150      211       67
D9V11, continuous
D9V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1 104   1   2   7
  subtype2 158   6   2   8
  subtype3  41   3   0   3
D9V13, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  32  13
  subtype2 160  62
  subtype3 106  41
subtype1 subtype2 subtype3 
      45      222      147 
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        21.93 
TCGA-44-2665 TCGA-44-6774 TCGA-44-6775 TCGA-44-A4SU TCGA-49-4512 TCGA-50-5045 
       42.77         5.42        12.16         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        53.59         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         0.76         1.45        13.28         0.43         4.18 
TCGA-97-7554 TCGA-97-8177 TCGA-J2-8192 TCGA-L9-A443 TCGA-MN-A4N1 TCGA-MP-A4SY 
       25.48         4.80         5.03         3.81         9.37        49.35 
TCGA-MP-A4T2 TCGA-MP-A4T6 TCGA-MP-A4TF 
       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        23.51 
TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 TCGA-44-7660 TCGA-44-7662 
       13.71        16.37        13.38        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        17.46        12.66         3.22        12.89 
TCGA-44-A47A TCGA-44-A4SS TCGA-49-4486 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 
        6.64         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 
       23.18        14.60        68.81        47.77        54.35        56.15 
TCGA-62-A470 TCGA-62-A471 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 TCGA-64-1679 
       39.22        29.00        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         1.12        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         1.41         0.69         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        30.90        56.68        17.75        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 
        0.85         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-99-7458 TCGA-99-8028 TCGA-J2-8194 TCGA-J2-A4AE 
        2.83         0.49        12.89        15.06         3.72         9.27 
TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4T4 TCGA-MP-A4T7 TCGA-MP-A4TC TCGA-MP-A4TH 
        7.82         2.50        86.04         5.49         2.43         4.67 
TCGA-MP-A4TI TCGA-MP-A4TJ TCGA-MP-A4TK 
       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 
   9.370   12.395   12.360 
[1] "0.1 - 224.0 (9.4)"  "0.1 - 208.6 (12.4)" "0.0 - 163.1 (12.4)"
  [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" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[385] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[391] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[403] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[409] "subtype1" "subtype3" "subtype3" "subtype3" "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" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[385] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[391] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[403] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[409] "subtype1" "subtype3" "subtype3" "subtype3" "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" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[385] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[391] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[403] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[409] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
D10V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       11       12         9         6          9          0
  subtype2       3       50       76        21        32         37          9
  subtype3       0       49       42        13        24         20          2
          vv
clus       STAGE IV
  subtype1        1
  subtype2        9
  subtype3       11
D10V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  14  31   3   0
  subtype2  64 139  22  10
  subtype3  60  79  14   8
D10V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  28  12     8
  subtype2 155  36    43
  subtype3 100  35    19
D10V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  34   1   0   0  12
  subtype2 166   7   1   2  60
  subtype3 108   8   0   1  43
D10V6, multiclass
D10V7, binary
          cls
clus         0   1
  subtype1  37  11
  subtype2 113 124
  subtype3  90  72
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37   11
  subtype2  113  124
  subtype3   90   72
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       37      113       90
  MALE         11      124       72
D10V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          0                                 5
  subtype2                          8                                47
  subtype3                          5                                37
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 36
  subtype2                                                162
  subtype3                                                 89
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             0
  subtype2                                             6
  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                            1
  subtype2                            1
  subtype3                            5
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   1  47
  subtype2  11 226
  subtype3   7 155
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   47
  subtype2   11  226
  subtype3    7  155
     clus
vv    subtype1 subtype2 subtype3
  NO         1       11        7
  YES       47      226      155
D10V11, continuous
D10V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  35   2   0   3
  subtype2 162   5   2  10
  subtype3 106   3   2   5
D10V13, multiclass

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2        0   1
  subtype1  94  35
  subtype2 123  36
  subtype3  42  23
subtype1 subtype2 subtype3 
     129      159       65 
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        30.90        56.68        17.75        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         0.85         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-99-7458 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
        5.36         0.49        12.89         9.27         7.82         2.50 
TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TH 
        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        13.71        16.37        10.68 
TCGA-44-7670 TCGA-44-8117 TCGA-44-8119 TCGA-44-8120 TCGA-44-A479 TCGA-44-A47A 
       17.46        12.66         3.22         8.55        12.89         6.64 
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        23.18 
TCGA-62-8398 TCGA-62-8399 TCGA-62-A46O TCGA-62-A46P TCGA-62-A46S TCGA-62-A46U 
       14.60        68.81        47.77        19.53        54.35        56.15 
TCGA-62-A470 TCGA-62-A471 TCGA-64-5774 TCGA-64-5775 TCGA-64-5778 TCGA-64-5779 
       39.22        29.00        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 
        1.12        16.70        24.49         0.43         1.41         0.69 
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        13.38        11.90         5.42 
TCGA-44-6775 TCGA-44-6778 TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 TCGA-44-A4SU 
       12.16        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        53.59        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         0.76 
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-J2-8192 TCGA-L9-A443 TCGA-MP-A4SY TCGA-MP-A4T2 
       25.48         4.80         5.03         3.81        49.35        37.35 
TCGA-MP-A4T6 TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TI TCGA-MP-A4TK 
       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 
   12.36     8.68    10.09 
[1] "0.0 - 163.1 (12.4)" "0.1 - 208.6 (8.7)"  "0.1 - 224.0 (10.1)"
  [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] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[331] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[343] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[349] "subtype1" "subtype3" "subtype2" "subtype3" "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] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[331] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[343] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[349] "subtype1" "subtype3" "subtype2" "subtype3" "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] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[331] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[343] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[349] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
D11V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       42       35        12        16         20          4
  subtype2       2       39       58        20        23         22          4
  subtype3       1       14       17         8        13         15          1
          vv
clus       STAGE IV
  subtype1        7
  subtype2        8
  subtype3        2
D11V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  52  61  14  10
  subtype2  49 106  15   4
  subtype3  21  44   4   1
D11V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  87  26    19
  subtype2 121  27    25
  subtype3  38  16    16
D11V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  89   5   0   1  40
  subtype2 119   6   1   2  47
  subtype3  41   1   0   0  28
D11V6, multiclass
D11V7, binary
          cls
clus        0  1
  subtype1 80 57
  subtype2 85 91
  subtype3 41 30
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   80   57
  subtype2   85   91
  subtype3   41   30
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       80       85       41
  MALE         57       91       30
D11V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          6                                37
  subtype2                          6                                31
  subtype3                          1                                 6
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 70
  subtype2                                                117
  subtype3                                                 54
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             9
  subtype2                                             8
  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                            1
  subtype3                            3
D11V9, multiclass
D11V10, binary
          cls
clus         0   1
  subtype1   6 131
  subtype2   6 170
  subtype3   5  66
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  131
  subtype2    6  170
  subtype3    5   66
     clus
vv    subtype1 subtype2 subtype3
  NO         6        6        5
  YES      131      170       66
D11V11, continuous
D11V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  82   4   1   4
  subtype2 126   2   0   6
  subtype3  43   2   0   5
D11V13, multiclass

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2        0   1
  subtype1  28  13
  subtype2 125  38
  subtype3 106  43
subtype1 subtype2 subtype3 
      41      163      149 
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         5.42        18.31        18.87        12.89 
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        53.59         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         0.76         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-99-8032 TCGA-J2-8192 TCGA-L9-A443 TCGA-MP-A4T2 TCGA-MP-A4T6 
        4.80         1.45         5.03         3.81        37.35        58.85 
TCGA-MP-A4T8 TCGA-MP-A4TC TCGA-MP-A4TD TCGA-MP-A4TF TCGA-MP-A4TK 
        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        13.71 
TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 TCGA-44-7660 TCGA-44-7662 TCGA-44-7670 
       16.37        13.38        36.49        10.68         7.17        17.46 
TCGA-44-8117 TCGA-44-8119 TCGA-44-8120 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4488 
       12.66         3.22         8.55         6.64         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        68.81        47.77        56.15 
TCGA-62-A470 TCGA-62-A471 TCGA-64-1679 TCGA-64-5774 TCGA-64-5775 TCGA-64-5778 
       39.22        29.00        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         1.12        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         1.41         0.69         0.62         0.85         1.12 
TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 TCGA-86-A456 TCGA-86-A4D0 TCGA-91-6828 
        1.08         0.56         0.49         0.33         0.99        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        12.16        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        23.18 
TCGA-62-8397 TCGA-62-A46R TCGA-62-A46S TCGA-62-A472 TCGA-64-1681 TCGA-64-5815 
       30.90        56.68        54.35        17.75        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         0.85         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-99-7458 TCGA-99-8025 
        0.72         5.36         2.83         0.49        12.89        14.04 
TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 TCGA-MP-A4SY TCGA-MP-A4T4 
       15.06         9.27         7.82         2.50        49.35        86.04 
TCGA-MP-A4T7 TCGA-MP-A4T9 TCGA-MP-A4TH TCGA-MP-A4TJ TCGA-MP-A5C7 
        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 
    6.21     8.05    12.89 
[1] "0.1 - 224.0 (6.2)"  "0.1 - 208.6 (8.1)"  "0.0 - 163.1 (12.9)"
  [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] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[325] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[331] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[349] "subtype3" "subtype2" "subtype3" "subtype1" "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] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[325] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[331] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[349] "subtype3" "subtype2" "subtype3" "subtype1" "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] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[325] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[331] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[337] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[349] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
D12V2, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0        9       11         8         5         10          0
  subtype2       3       39       57        20        23         26          4
  subtype3       0       47       42        12        24         21          5
          vv
clus       STAGE IV
  subtype1        1
  subtype2        7
  subtype3        9
D12V3, multiclass
          vv
clus        T1  T2  T3  T4
  subtype1  14  28   2   0
  subtype2  52 106  15   4
  subtype3  56  77  16  11
D12V4, multiclass
          vv
clus        N0  N1 N2+N3
  subtype1  26   8    10
  subtype2 119  29    29
  subtype3 101  32    21
D12V5, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  28   1   0   0  14
  subtype2 119   5   1   2  51
  subtype3 102   6   0   1  50
D12V6, multiclass
D12V7, binary
          cls
clus        0  1
  subtype1 30 14
  subtype2 83 96
  subtype3 93 68
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   30   14
  subtype2   83   96
  subtype3   93   68
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       30       83       93
  MALE         14       96       68
D12V8, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          0                                 5
  subtype2                          7                                32
  subtype3                          6                                37
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 32
  subtype2                                                123
  subtype3                                                 86
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             1
  subtype2                                             7
  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                            1
  subtype2                            1
  subtype3                            5
D12V9, multiclass
D12V10, binary
          cls
clus         0   1
  subtype1   0  44
  subtype2   9 170
  subtype3   8 153
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   44
  subtype2    9  170
  subtype3    8  153
     clus
vv    subtype1 subtype2 subtype3
  NO         0        9        8
  YES       44      170      153
D12V11, continuous
D12V12, continuous
          vv
clus        R0  R1  R2  RX
  subtype1  32   1   0   1
  subtype2 119   2   0   7
  subtype3 100   5   1   7
D12V13, multiclass
> q(save="no")
