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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.85.4149/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.85.4149/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/LUAD-TP/3537660/LUAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/LUAD-TP/3351464/LUAD-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=395, in cluster file=498, common to both=393
[1]  12 393
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
 5  9 12  6 
 1  2  3  4 
 5  9 12  6 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3 
 7 13 12 
 1  2  3 
 7 13 12 
[1] "CN_CNMF"
[1] 3
  1   2   3 
151 159  79 
  1   2   3 
151 159  79 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3  4 
68 91 82 82 
 1  2  3  4 
68 91 82 82 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
86 75 76 
 1  2  3 
86 75 76 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
23 90 66 58 
 1  2  3  4 
23 90 66 58 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4  5  6  7  8  9 
68 50 50 39 26 43 36 21 21 
 1  2  3  4  5  6  7  8  9 
68 50 50 39 26 43 36 21 21 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
146  96 112 
  1   2   3 
146  96 112 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
140 165  81 
  1   2   3 
140 165  81 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
133 208  45 
  1   2   3 
133 208  45 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
128 137  58 
  1   2   3 
128 137  58 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3 
124  33 166 
  1   2   3 
124  33 166 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "KARNOFSKYPERFORMANCESCORE"             
[11] "HISTOLOGICALTYPE"                      
[12] "RADIATIONS.RADIATION.REGIMENINDICATION"
[13] "NUMBERPACKYEARSSMOKED"                 
[14] "YEAROFTOBACCOSMOKINGONSET"             
[15] "DISTANT.METASTASIS"                    
[16] "LYMPH.NODE.METASTASIS"                 
[17] "COMPLETENESS.OF.RESECTION"             
[18] "TUMOR.STAGECODE"                       
[19] "NEOPLASM.DISEASESTAGE"                 
[20] "BATCHNUMBER"                           

Input Data has 20 rows and 393 columns.

[1] "Batch" "20"   
[1] "Last Follow UP"
TCGA-05-4244 TCGA-05-4249 TCGA-05-4250 TCGA-05-4382 TCGA-05-4384 TCGA-05-4389 
          NA         1158           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           31          151 
TCGA-05-5425 TCGA-05-5428 TCGA-05-5429 TCGA-05-5715 TCGA-35-3615 TCGA-35-4122 
          90           NA           30           62           14          224 
TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4626 TCGA-38-4627 TCGA-38-4628 
         181          264         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          158           NA 
TCGA-38-A44F TCGA-44-2655 TCGA-44-2656 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 
         133          574          581          400          529          103 
TCGA-44-2662 TCGA-44-2664 TCGA-44-2665 TCGA-44-2666 TCGA-44-2668 TCGA-44-3396 
         480          383          400           97          246          311 
TCGA-44-3398 TCGA-44-3917 TCGA-44-3918 TCGA-44-3919 TCGA-44-4112 TCGA-44-5643 
         253          392          196          189          140          106 
TCGA-44-5644 TCGA-44-5645 TCGA-44-6144 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 
         498          208            9          102          302          236 
TCGA-44-6148 TCGA-44-6774 TCGA-44-6775 TCGA-44-6776 TCGA-44-6777 TCGA-44-6778 
          95          165           82         1938           NA         1110 
TCGA-44-6779 TCGA-44-7659 TCGA-44-7660 TCGA-44-7661 TCGA-44-7662 TCGA-44-7667 
          NA          298          162          153           50          557 
TCGA-44-7669 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-44-8117 TCGA-44-8119 
          NA          531          535          418          259           98 
TCGA-44-A479 TCGA-44-A47A TCGA-44-A47F TCGA-44-A47G TCGA-44-A4SS TCGA-44-A4SU 
         255          202          246          135          114           76 
TCGA-49-4486 TCGA-49-4487 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4501 
        2318           NA           NA           NA         1081         1421 
TCGA-49-4505 TCGA-49-4506 TCGA-49-4507 TCGA-49-4510 TCGA-49-4512 TCGA-49-4514 
         428          999          268          896           NA         1314 
TCGA-49-6742 TCGA-49-6743 TCGA-49-6744 TCGA-49-6745 TCGA-49-6761 TCGA-49-6767 
         457          369          395          150            1           NA 
TCGA-50-5044 TCGA-50-5045 TCGA-50-5049 TCGA-50-5051 TCGA-50-5055 TCGA-50-5066 
          NA         2174         1485          455          785          297 
TCGA-50-5068 TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5932 TCGA-50-5933 
        1499          245          282          267         1091         2369 
TCGA-50-5935 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 
         653           NA           NA          285          135          373 
TCGA-50-5946 TCGA-50-6590 TCGA-50-6591 TCGA-50-6592 TCGA-50-6593 TCGA-50-6594 
         349           NA           NA           NA           NA           NA 
TCGA-50-6595 TCGA-50-6597 TCGA-50-6673 TCGA-50-7109 TCGA-53-7624 TCGA-53-7626 
          NA         1015           NA          255           NA           NA 
TCGA-53-7813 TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-55-5899 
         418          701         1178         1479         1374           87 
TCGA-55-6543 TCGA-55-6642 TCGA-55-6712 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 
           2          992           24           NA         1238           NA 
TCGA-55-6971 TCGA-55-6972 TCGA-55-6975 TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 
          28         1475           NA           NA           NA           67 
TCGA-55-6981 TCGA-55-6982 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 
          NA           NA         1826           NA         1233         2161 
TCGA-55-6987 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7570 TCGA-55-7573 
        1170           61           18           34           NA            4 
TCGA-55-7574 TCGA-55-7576 TCGA-55-7725 TCGA-55-7726 TCGA-55-7727 TCGA-55-7728 
          95           40           39           31           31           24 
TCGA-55-7815 TCGA-55-7816 TCGA-55-7903 TCGA-55-7907 TCGA-55-7910 TCGA-55-7911 
          54           31           19           16          197           21 
TCGA-55-7914 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8092 TCGA-55-8094 
           3           21           92            6           26            4 
TCGA-55-8097 TCGA-55-8299 TCGA-55-8301 TCGA-55-8510 TCGA-55-8511 TCGA-55-8512 
          15          215           43          227            9            3 
TCGA-55-8513 TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 TCGA-55-8619 TCGA-55-8620 
         146          212           15           48           49           65 
TCGA-55-8621 TCGA-55-A48X TCGA-55-A48Y TCGA-55-A48Z TCGA-55-A490 TCGA-55-A491 
         105           33           31           29           48           NA 
TCGA-55-A492 TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DG TCGA-62-8399 TCGA-62-A46O 
           1           28            5          161         2093           NA 
TCGA-62-A46P TCGA-62-A470 TCGA-62-A472 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 
          NA           NA          540         1728          628         1189 
TCGA-64-1679 TCGA-64-1680 TCGA-64-1681 TCGA-64-5774 TCGA-64-5775 TCGA-64-5778 
        1685         1126           NA         2550            3          926 
TCGA-64-5779 TCGA-64-5781 TCGA-64-5815 TCGA-67-3770 TCGA-67-3771 TCGA-67-3772 
         507         1202          223           30          609          573 
TCGA-67-3773 TCGA-67-3774 TCGA-67-4679 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 
         427          385           NA          161          140          422 
TCGA-69-7760 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 TCGA-69-7973 
         154          186          690          414          129          230 
TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 TCGA-69-8253 TCGA-69-8254 
         184           70           89          382           99           76 
TCGA-69-8255 TCGA-71-6725 TCGA-73-4658 TCGA-73-4659 TCGA-73-4662 TCGA-73-4666 
         128           61         1599          711          911          617 
TCGA-73-4668 TCGA-73-4670 TCGA-73-4675 TCGA-73-4676 TCGA-73-4677 TCGA-73-7498 
         467           14           40          122           38          621 
TCGA-73-7499 TCGA-75-5122 TCGA-75-5125 TCGA-75-5126 TCGA-75-5146 TCGA-75-5147 
         519           NA           NA           NA           NA           NA 
TCGA-75-6203 TCGA-75-6205 TCGA-75-6206 TCGA-75-6207 TCGA-75-6211 TCGA-75-6212 
          NA           NA           NA           NA           NA           NA 
TCGA-75-6214 TCGA-75-7025 TCGA-75-7027 TCGA-75-7030 TCGA-75-7031 TCGA-78-7143 
          NA           NA           NA           NA           NA           NA 
TCGA-78-7145 TCGA-78-7146 TCGA-78-7147 TCGA-78-7148 TCGA-78-7149 TCGA-78-7150 
          NA           NA           NA           NA         1093           NA 
TCGA-78-7152 TCGA-78-7153 TCGA-78-7154 TCGA-78-7155 TCGA-78-7156 TCGA-78-7158 
        1201          760           NA           NA           NA           NA 
TCGA-78-7159 TCGA-78-7160 TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 TCGA-78-7166 
        1220          678          214           NA         6812           NA 
TCGA-78-7167 TCGA-78-7220 TCGA-78-7535 TCGA-78-7536 TCGA-78-7537 TCGA-78-7539 
          NA           NA           NA           NA           NA          327 
TCGA-78-7540 TCGA-78-7542 TCGA-78-7633 TCGA-80-5607 TCGA-80-5608 TCGA-80-5611 
         881           NA          994           NA           NA           NA 
TCGA-83-5908 TCGA-86-6562 TCGA-86-6851 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 
         420           NA           NA           11           27            7 
TCGA-86-7714 TCGA-86-7953 TCGA-86-7954 TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 
          NA           34           NA           14           19           10 
TCGA-86-8056 TCGA-86-8073 TCGA-86-8074 TCGA-86-8075 TCGA-86-8076 TCGA-86-8278 
          NA           13           24           43           26           23 
TCGA-86-8279 TCGA-86-8280 TCGA-86-8281 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 
          21           16           NA           19           26           34 
TCGA-86-8668 TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 TCGA-86-8673 TCGA-86-8674 
          44           33           17           15           NA           NA 
TCGA-86-A456 TCGA-86-A4D0 TCGA-86-A4P8 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 
          10           30           39           37           NA            1 
TCGA-91-6831 TCGA-91-6835 TCGA-91-6836 TCGA-91-6840 TCGA-91-6847 TCGA-91-6848 
          39           35           11           NA          819          127 
TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 TCGA-93-7348 TCGA-93-8067 TCGA-95-7039 
          35           31          297          127          185           34 
TCGA-95-7043 TCGA-95-7567 TCGA-95-7944 TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 
           2          163           21           40          132          963 
TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 
        1435         1476         1331          263          181           NA 
TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 TCGA-97-8179 
          22          106          181           NA          146           15 
TCGA-99-7458 TCGA-99-8025 TCGA-99-8028 TCGA-99-8032 TCGA-99-8033 TCGA-J2-8192 
         250          427          458           44          169          153 
TCGA-J2-8194 TCGA-J2-A4AD TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E5 TCGA-L4-A4E6 
         113          287          282          238          212           76 
TCGA-L9-A443 TCGA-L9-A444 TCGA-MN-A4N4 
         116            6          621 
Variable 1:'AGE':	nDistinctValues=49,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=86,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=227,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=21,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=41,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=6,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'HISTOLOGICAL.TYPE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'NUMBERPACKYEARSSMOKED':	nDistinctValues=85,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 14:'YEAROFTOBACCOSMOKINGONSET':	nDistinctValues=56,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 15:'DISTANT.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'LYMPH.NODE.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 18:'TUMOR.STAGECODE':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'NEOPLASM.DISEASESTAGE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 20:'BATCH.NUMBER':	nDistinctValues=17,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "GENDER"                                
 [3] "KARNOFSKY.PERFORMANCE.SCORE"           
 [4] "HISTOLOGICAL.TYPE"                     
 [5] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [6] "NUMBERPACKYEARSSMOKED"                 
 [7] "YEAROFTOBACCOSMOKINGONSET"             
 [8] "DISTANT.METASTASIS"                    
 [9] "LYMPH.NODE.METASTASIS"                 
[10] "COMPLETENESS.OF.RESECTION"             
[11] "TUMOR.STAGECODE"                       
[12] "NEOPLASM.DISEASESTAGE"                 
[1] "TUMOR.?STAGE" "11"          
[1] "stage2"
vv
 T1 T1A T1B  T2 T2A T2B  T3  T4  TX 
 55  33  33 143  54  20  33  18   3 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 393 columns, 1 survival variables, and 12 non-survival variables.
AGE, nv=49, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=6, binary=FALSE, numeric=TRUE
HISTOLOGICAL.TYPE, nv=11, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=85, binary=FALSE, numeric=TRUE
YEAROFTOBACCOSMOKINGONSET, nv=56, binary=FALSE, numeric=TRUE
DISTANT.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=8, binary=FALSE, numeric=FALSE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1  4  0
  subtype2  8  1
  subtype3 11  1
  subtype4  4  2
subtype1 subtype2 subtype3 subtype4 
       4        9       12        6 
subtype1 subtype2 subtype3 subtype4 
       0        1        1        2 
$subtype1
TCGA-35-4123 TCGA-44-2665 TCGA-44-3919 TCGA-55-1595 
        5.95        13.15         6.21        48.62 

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

$subtype3
TCGA-35-3615 TCGA-44-2655 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 
        0.46        18.87        13.15        17.39         3.39         3.19 
TCGA-44-4112 TCGA-64-1680 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 TCGA-67-3774 
        4.60        37.02         0.99        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    37.02    45.17 
subtype1 subtype2 subtype3 subtype4 
   9.680    8.320   12.905   30.890 
[1] "6.0 - 48.6 (9.7)"   "4.0 - 56.8 (8.3)"   "0.5 - 37.0 (12.9)" 
[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
D1V3, binary
          cls
clus       0 1
  subtype1 3 2
  subtype2 3 6
  subtype3 9 3
  subtype4 3 3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3    2
  subtype2    3    6
  subtype3    9    3
  subtype4    3    3
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        3        3        9        3
  MALE          2        6        3        3
D1V4, continuous
[1] "Remove cluster labels:" "subtype1"               "subtype2"              
[4] "subtype4"              
clus
subtype1 subtype2 subtype4 
       1        1        1 
character(0)
          vv
clus       LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                                 0
  subtype2                                 0
  subtype3                                 1
  subtype4                                 0
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                  4
  subtype2                                                  9
  subtype3                                                 11
  subtype4                                                  6
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA
  subtype1                              1
  subtype2                              0
  subtype3                              0
  subtype4                              0
D1V5, multiclass
D1V6, 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
D1V7, 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"
D1V8, 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       M0 M1
  subtype1  4  1
  subtype2  9  0
  subtype3 11  1
  subtype4  6  0
D1V9, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  M0        4        9       11        6
  M1        1        0        1        0
          vv
clus       N0 N1 N2 NX
  subtype1  3  1  1  0
  subtype2  8  1  0  0
  subtype3  9  1  1  1
  subtype4  3  1  2  0
D1V10, multiclass
          vv
clus       R0 R2 RX
  subtype1  3  0  1
  subtype2  7  1  0
  subtype3 10  0  0
  subtype4  6  0  0
D1V11, multiclass
D1V12, 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
D1V13, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1  5  2
  subtype2 12  1
  subtype3 10  1
subtype1 subtype2 subtype3 
       7       13       11 
subtype1 subtype2 subtype3 
       2        1        1 
$subtype1
TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-64-1677 TCGA-64-1678 
       23.05        38.73        48.62        45.17        20.65        39.09 
TCGA-67-3771 
       20.02 

$subtype2
TCGA-35-3615 TCGA-44-2655 TCGA-44-2656 TCGA-44-2657 TCGA-44-2659 TCGA-44-2661 
        0.46        18.87        19.10        13.15        17.39         3.39 
TCGA-44-2666 TCGA-44-4112 TCGA-64-1680 TCGA-67-3770 TCGA-67-3772 TCGA-67-3773 
        3.19         4.60        37.02         0.99        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 
       38.07         3.98         7.36         5.95        15.78        13.15 
TCGA-44-2668 TCGA-44-3398 TCGA-44-3918 TCGA-44-3919 TCGA-64-1676 
        8.09         8.32         6.44         6.21        56.81 

subtype1 subtype2 subtype3 
   20.02     0.46     3.98 
subtype1 subtype2 subtype3 
   48.62    37.02    56.81 
subtype1 subtype2 subtype3 
   38.73    13.15     8.09 
[1] "20.0 - 48.6 (38.7)" "0.5 - 37.0 (13.2)"  "4.0 - 56.8 (8.1)"  
 [1] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[13] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[31] "subtype2"
 [1] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[13] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[31] "subtype2"
 [1] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[13] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[31] "subtype2"
D2V2, continuous
D2V3, binary
          cls
clus       0 1
  subtype1 4 3
  subtype2 9 4
  subtype3 5 7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4    3
  subtype2    9    4
  subtype3    5    7
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        4        9        5
  MALE          3        4        7
D2V4, continuous
[1] "Remove cluster labels:" "subtype1"               "subtype3"              
clus
subtype1 subtype3 
       1        2 
character(0)
          vv
clus       LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                                 0
  subtype2                                 1
  subtype3                                 0
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                  6
  subtype2                                                 12
  subtype3                                                 12
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA
  subtype1                              1
  subtype2                              0
  subtype3                              0
D2V5, multiclass
D2V6, 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
D2V7, continuous
D2V8, continuous
          vv
clus       M0 M1
  subtype1  7  0
  subtype2 12  1
  subtype3 11  1
D2V9, multiclass
    clus
vv   subtype1 subtype2 subtype3
  M0        7       12       11
  M1        0        1        1
          vv
clus       N0 N1 N2 NX
  subtype1  4  1  2  0
  subtype2 10  1  1  1
  subtype3  9  2  1  0
D2V10, multiclass
          vv
clus       R0 R2 RX
  subtype1  6  0  0
  subtype2 10  0  0
  subtype3 10  1  1
D2V11, multiclass
D2V12, 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
D2V13, multiclass

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1  98  35
  subtype2 113  33
  subtype3  55  19
subtype1 subtype2 subtype3 
     133      146       74 
subtype1 subtype2 subtype3 
      35       33       19 
$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-05-5715 TCGA-35-4123 TCGA-38-4629 
       26.01         4.96         2.96         2.04         5.95        28.37 
TCGA-38-4631 TCGA-38-4632 TCGA-38-6178 TCGA-44-2656 TCGA-44-2659 TCGA-44-2662 
       11.64        44.61         5.19        19.10        17.39        15.78 
TCGA-44-3919 TCGA-44-4112 TCGA-44-5644 TCGA-44-6144 TCGA-44-6775 TCGA-44-6777 
        6.21         4.60        16.37         0.30         2.70        32.45 
TCGA-44-6779 TCGA-44-7662 TCGA-44-8117 TCGA-44-A4SU TCGA-49-4488 TCGA-49-4490 
       16.41         1.64         8.52         2.50        28.57        12.66 
TCGA-49-4501 TCGA-49-4505 TCGA-49-4507 TCGA-49-4512 TCGA-49-6761 TCGA-50-5045 
       46.72        14.07         8.81        29.75         0.03        71.47 
TCGA-50-5930 TCGA-50-5933 TCGA-50-5944 TCGA-50-5946 TCGA-50-6591 TCGA-50-6593 
        9.27        77.88        12.26        11.47         3.88        11.05 
TCGA-50-6594 TCGA-50-6597 TCGA-53-7624 TCGA-55-1592 TCGA-55-1594 TCGA-55-1595 
       12.16        33.37        34.26        23.05        38.73        48.62 
TCGA-55-1596 TCGA-55-6543 TCGA-55-6712 TCGA-55-6972 TCGA-55-6979 TCGA-55-6980 
       45.17         0.07         0.79        48.49         7.76         2.20 
TCGA-55-6981 TCGA-55-6982 TCGA-55-6985 TCGA-55-7283 TCGA-55-7573 TCGA-55-7576 
       45.34        32.71        40.54         1.12         0.13         1.32 
TCGA-55-7726 TCGA-55-7727 TCGA-55-7910 TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 
        1.02         1.02         6.48         7.46         0.30         6.97 
TCGA-55-8616 TCGA-55-A48Z TCGA-55-A490 TCGA-55-A4DG TCGA-62-8399 TCGA-62-A46O 
        1.58         0.95         1.58         5.29        68.81        47.77 
TCGA-62-A472 TCGA-64-1676 TCGA-64-1678 TCGA-64-1679 TCGA-64-1681 TCGA-64-5778 
       17.75        56.81        39.09        55.40        44.38        30.44 
TCGA-67-3770 TCGA-67-3772 TCGA-67-6217 TCGA-69-7760 TCGA-69-7979 TCGA-69-7980 
        0.99        18.84        13.87         5.06         2.93        12.56 
TCGA-71-6725 TCGA-73-4662 TCGA-73-4668 TCGA-73-4670 TCGA-73-7499 TCGA-78-7143 
        2.01        29.95        15.35         0.46        17.06       163.10 
TCGA-78-7145 TCGA-78-7147 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7161 
       27.16        19.27        21.86        19.50        38.50         7.04 
TCGA-78-7163 TCGA-78-7535 TCGA-78-7539 TCGA-78-7542 TCGA-83-5908 TCGA-86-7711 
      223.96        31.20        10.75        10.55        13.81         0.89 
TCGA-86-7713 TCGA-86-7953 TCGA-86-8054 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 
        0.23         1.12         0.62         0.33         0.79         1.41 
TCGA-86-8279 TCGA-86-8280 TCGA-86-8358 TCGA-86-8359 TCGA-86-8668 TCGA-91-6829 
        0.69         0.53         0.62         0.85         1.45        41.33 
TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-95-7947 
        0.36        26.93         4.18         1.12         5.36         1.32 
TCGA-97-7546 TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-8171 TCGA-97-8179 
       31.66         8.65         5.95         0.59         3.48         0.49 
TCGA-99-8025 TCGA-J2-8192 TCGA-J2-8194 TCGA-J2-A4AD TCGA-J2-A4AE TCGA-L4-A4E5 
       14.04         5.03         3.72         9.44         9.27         6.97 
TCGA-MN-A4N4 
       20.42 

$subtype2
TCGA-05-4249 TCGA-05-4382 TCGA-05-4384 TCGA-05-4396 TCGA-05-4397 TCGA-05-4403 
       38.07        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         1.02 
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        18.87        13.15         3.39        13.15 
TCGA-44-2666 TCGA-44-2668 TCGA-44-3396 TCGA-44-3398 TCGA-44-5645 TCGA-44-6145 
        3.19         8.09        10.22         8.32         6.84         3.35 
TCGA-44-6146 TCGA-44-6148 TCGA-44-6776 TCGA-44-7659 TCGA-44-7661 TCGA-44-7671 
        9.93         3.12        63.72         9.80         5.03        17.59 
TCGA-44-7672 TCGA-44-A479 TCGA-44-A47A TCGA-44-A47F TCGA-44-A47G TCGA-44-A4SS 
       13.74         8.38         6.64         8.09         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        43.20        15.02 
TCGA-49-6743 TCGA-49-6744 TCGA-49-6745 TCGA-50-5044 TCGA-50-5049 TCGA-50-5055 
       12.13        12.99         4.93        20.48        48.82        25.81 
TCGA-50-5066 TCGA-50-5068 TCGA-50-5072 TCGA-50-5932 TCGA-50-5939 TCGA-50-5942 
        9.76        49.28         8.05        35.87        15.12         4.44 
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-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8097 TCGA-55-8299 
        0.10         0.69         3.02         0.20         0.49         7.07 
TCGA-55-8301 TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 TCGA-55-8620 TCGA-55-8621 
        1.41         0.10         4.80         1.61         2.14         3.45 
TCGA-55-A48X TCGA-55-A48Y TCGA-55-A492 TCGA-55-A493 TCGA-64-1680 TCGA-64-5781 
        1.08         1.02         0.03         0.92        37.02        39.52 
TCGA-64-5815 TCGA-67-3773 TCGA-67-3774 TCGA-67-6215 TCGA-67-6216 TCGA-69-7761 
        7.33        14.04        12.66         5.29         4.60         6.12 
TCGA-69-7763 TCGA-69-7765 TCGA-69-7974 TCGA-69-7978 TCGA-69-8253 TCGA-69-8254 
       22.68         4.24         6.05         2.30         3.25         2.50 
TCGA-73-4658 TCGA-73-4677 TCGA-73-7498 TCGA-78-7148 TCGA-78-7152 TCGA-78-7153 
       52.57         1.25        20.42        20.58        39.48        24.99 
TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 TCGA-78-7537 
       32.09         5.88        22.29       104.15         8.48        53.33 
TCGA-78-7540 TCGA-78-7633 TCGA-86-8073 TCGA-86-8076 TCGA-86-8278 TCGA-86-8671 
       28.96        32.68         0.43         0.85         0.76         0.56 
TCGA-86-8672 TCGA-86-A456 TCGA-86-A4P8 TCGA-91-6830 TCGA-91-6835 TCGA-91-6849 
        0.49         0.33         1.28         0.03         1.15         1.15 
TCGA-93-7347 TCGA-93-7348 TCGA-95-7944 TCGA-97-7547 TCGA-97-7552 TCGA-97-7553 
        9.76         4.18         0.69        47.18        48.53        43.76 
TCGA-97-7941 TCGA-97-8172 TCGA-97-8174 TCGA-97-8177 TCGA-99-7458 TCGA-99-8028 
        0.72         5.95         5.36         4.80         8.22        15.06 
TCGA-J2-A4AG TCGA-L4-A4E6 
        7.82         2.50 

$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         6.44         3.48 
TCGA-44-6147 TCGA-44-6774 TCGA-44-6778 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 
        7.76         5.42        36.49         5.33        18.31        18.87 
TCGA-44-7670 TCGA-44-8119 TCGA-49-4510 TCGA-50-5051 TCGA-50-5931 TCGA-50-5935 
       17.46         3.22        29.46        14.96         8.78        21.47 
TCGA-50-5936 TCGA-50-5941 TCGA-50-7109 TCGA-53-7813 TCGA-55-5899 TCGA-55-6968 
        8.45         9.37         8.38        13.74         2.86        42.48 
TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 TCGA-55-7903 TCGA-55-7907 TCGA-55-8092 
       40.70        15.25         0.92         0.62         0.53         0.85 
TCGA-55-8094 TCGA-55-8615 TCGA-55-A494 TCGA-62-A46P TCGA-62-A470 TCGA-64-1677 
        0.13         0.49         0.16        19.53        39.22        20.65 
TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 TCGA-67-3771 TCGA-69-7764 TCGA-69-7973 
       83.84         0.10        16.67        20.02        13.61         7.56 
TCGA-69-8255 TCGA-73-4659 TCGA-73-4666 TCGA-73-4675 TCGA-73-4676 TCGA-78-7146 
        4.21        23.38        20.28         1.32         4.01         5.65 
TCGA-78-7149 TCGA-78-7159 TCGA-78-7167 TCGA-78-7220 TCGA-78-7536 TCGA-86-7701 
       35.93        40.11        88.11        26.53         8.02         0.36 
TCGA-86-7955 TCGA-86-8585 TCGA-86-8669 TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6831 
        0.46         1.12         1.08         0.99         1.22         1.28 
TCGA-91-7771 TCGA-93-8067 TCGA-95-7043 TCGA-95-7948 TCGA-99-8032 TCGA-99-8033 
        1.02         6.08         0.07         4.34         1.45         5.56 
TCGA-L9-A443 TCGA-L9-A444 
        3.81         0.20 

subtype1 subtype2 subtype3 
    0.03     0.03     0.07 
subtype1 subtype2 subtype3 
  223.96   120.79    97.74 
subtype1 subtype2 subtype3 
    9.44     8.09     7.89 
[1] "0.0 - 224.0 (9.4)" "0.0 - 120.8 (8.1)" "0.1 - 97.7 (7.9)" 
  [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" "subtype2" "subtype1"
 [31] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[175] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[223] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[241] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[247] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[259] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[265] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[271] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[277] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[283] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[301] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[319] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[325] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[343] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[349] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
  [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" "subtype2" "subtype1"
 [31] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[175] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[223] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[241] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[247] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[259] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[265] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[271] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[277] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[283] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[301] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[319] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[325] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[343] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[349] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
  [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" "subtype2" "subtype1"
 [31] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[175] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[223] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[241] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[247] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[259] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[265] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[271] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[277] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
[283] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[301] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[307] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[313] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[319] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[325] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[331] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[337] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[343] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[349] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 91 60
  subtype2 86 73
  subtype3 34 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   91   60
  subtype2   86   73
  subtype3   34   45
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       91       86       34
  MALE         60       73       45
D3V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          6                                25
  subtype2                          3                                39
  subtype3                          2                                15
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 98
  subtype2                                                 89
  subtype3                                                 56
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          2
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             6
  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                             6
  subtype2                            2                            10
  subtype3                            0                             2
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             2
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            6
  subtype3                            1
D3V5, multiclass
D3V6, binary
          cls
clus         0   1
  subtype1   5 146
  subtype2   7 152
  subtype3   6  73
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  146
  subtype2    7  152
  subtype3    6   73
     clus
vv    subtype1 subtype2 subtype3
  NO         5        7        6
  YES      146      152       73
D3V7, continuous
D3V8, continuous
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 100   8   1   0  40
  subtype2 109   4   0   2  42
  subtype3  53   5   0   1  20
D3V9, multiclass
          vv
clus        N0  N1  N2  N3  NX
  subtype1  94  29  24   2   2
  subtype2 103  33  19   0   2
  subtype3  51  10  15   0   3
D3V10, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 95  4  1  7
  subtype2 99  4  2  4
  subtype3 49  1  1  3
D3V11, multiclass
D3V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       2       31       47        14        21         22          5
  subtype2       0       46       46        13        24         18          3
  subtype3       1       20       20         5         8         17          3
          vv
clus       STAGE IV
  subtype1        9
  subtype2        7
  subtype3        5
D3V13, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 49 11
  subtype2 57 24
  subtype3 60 14
  subtype4 58 17
subtype1 subtype2 subtype3 subtype4 
      60       81       74       75 
subtype1 subtype2 subtype3 subtype4 
      11       24       14       17 
$subtype1
TCGA-05-4384 TCGA-05-5423 TCGA-05-5715 TCGA-44-5645 TCGA-44-6146 TCGA-44-6148 
       14.01         4.96         2.04         6.84         9.93         3.12 
TCGA-44-6776 TCGA-44-7659 TCGA-44-7671 TCGA-44-A47F TCGA-49-4512 TCGA-50-5932 
       63.72         9.80        17.59         8.09        29.75        35.87 
TCGA-50-5935 TCGA-50-5942 TCGA-50-5944 TCGA-50-6594 TCGA-53-7626 TCGA-55-6543 
       21.47         4.44        12.26        12.16        30.54         0.07 
TCGA-55-6972 TCGA-55-6983 TCGA-55-6985 TCGA-55-6986 TCGA-55-7573 TCGA-55-7725 
       48.49        60.03        40.54        71.05         0.13         1.28 
TCGA-55-8087 TCGA-55-8097 TCGA-55-8512 TCGA-55-A492 TCGA-64-5778 TCGA-67-6215 
        0.69         0.49         0.10         0.03        30.44         5.29 
TCGA-67-6216 TCGA-67-6217 TCGA-69-7760 TCGA-69-7763 TCGA-69-7764 TCGA-69-8253 
        4.60        13.87         5.06        22.68        13.61         3.25 
TCGA-69-8254 TCGA-73-7498 TCGA-78-7143 TCGA-78-7156 TCGA-78-7162 TCGA-78-7163 
        2.50        20.42       163.10        32.09       104.15       223.96 
TCGA-78-7537 TCGA-86-8280 TCGA-86-8668 TCGA-91-6849 TCGA-93-7348 TCGA-95-7948 
       53.33         0.53         1.45         1.15         4.18         4.34 
TCGA-97-7546 TCGA-97-7547 TCGA-97-7938 TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 
       31.66        47.18         0.59         0.72         3.48         5.95 
TCGA-97-8174 TCGA-97-8177 TCGA-99-7458 TCGA-J2-8192 TCGA-J2-A4AE TCGA-L9-A443 
        5.36         4.80         8.22         5.03         9.27         3.81 

$subtype2
TCGA-05-4390 TCGA-05-4415 TCGA-05-4424 TCGA-05-5425 TCGA-35-5375 TCGA-38-4631 
       37.02         2.96        30.02         2.96         8.68        11.64 
TCGA-44-5644 TCGA-44-6144 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 
       16.37         0.30         5.33        18.31        18.87        17.46 
TCGA-44-8119 TCGA-44-A4SU TCGA-49-4490 TCGA-49-6742 TCGA-50-5051 TCGA-50-5072 
        3.22         2.50        12.66        15.02        14.96         8.05 
TCGA-50-5931 TCGA-50-5936 TCGA-50-5946 TCGA-50-6591 TCGA-50-6673 TCGA-50-7109 
        8.78         8.45        11.47         3.88         0.72         8.38 
TCGA-53-7624 TCGA-53-7813 TCGA-55-5899 TCGA-55-6968 TCGA-55-6970 TCGA-55-7910 
       34.26        13.74         2.86        42.48        15.25         6.48 
TCGA-55-8094 TCGA-55-8514 TCGA-55-8615 TCGA-55-8620 TCGA-55-A48Y TCGA-55-A48Z 
        0.13         6.97         0.49         2.14         1.02         0.95 
TCGA-55-A490 TCGA-55-A494 TCGA-62-8399 TCGA-62-A46O TCGA-62-A470 TCGA-64-1681 
        1.58         0.16        68.81        47.77        39.22        44.38 
TCGA-64-5774 TCGA-64-5779 TCGA-69-7973 TCGA-69-7979 TCGA-69-7980 TCGA-73-7499 
       83.84        16.67         7.56         2.93        12.56        17.06 
TCGA-78-7146 TCGA-78-7148 TCGA-78-7149 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 
        5.65        20.58        35.93        21.86        19.50        38.50 
TCGA-78-7159 TCGA-78-7161 TCGA-78-7166 TCGA-78-7167 TCGA-78-7220 TCGA-78-7536 
       40.11         7.04         8.48        88.11        26.53         8.02 
TCGA-78-7633 TCGA-86-7713 TCGA-86-7955 TCGA-86-8054 TCGA-86-8075 TCGA-86-8279 
       32.68         0.23         0.46         0.62         1.41         0.69 
TCGA-86-8358 TCGA-86-8359 TCGA-86-8669 TCGA-86-A4D0 TCGA-91-6829 TCGA-91-6831 
        0.62         0.85         1.08         0.99        41.33         1.28 
TCGA-91-6847 TCGA-91-7771 TCGA-95-7043 TCGA-95-7947 TCGA-97-8179 TCGA-99-8032 
       26.93         1.02         0.07         1.32         0.49         1.45 
TCGA-J2-8194 TCGA-J2-A4AD TCGA-MN-A4N4 
        3.72         9.44        20.42 

$subtype3
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-05-5429 TCGA-38-4632 TCGA-38-6178 TCGA-44-6147 TCGA-44-6775 TCGA-44-7662 
        0.99        44.61         5.19         7.76         2.70         1.64 
TCGA-44-7672 TCGA-44-8117 TCGA-44-A47A TCGA-49-4488 TCGA-49-6745 TCGA-49-6761 
       13.74         8.52         6.64        28.57         4.93         0.03 
TCGA-50-5933 TCGA-50-6593 TCGA-50-6597 TCGA-55-6642 TCGA-55-6712 TCGA-55-6982 
       77.88        11.05        33.37        32.61         0.79        32.71 
TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7576 TCGA-55-7727 TCGA-55-7815 
        2.01         0.59         1.12         1.32         1.02         1.78 
TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 TCGA-55-7914 TCGA-55-8090 TCGA-55-8092 
        0.62         0.53         0.69         0.10         0.20         0.85 
TCGA-55-8511 TCGA-55-8616 TCGA-55-A4DG TCGA-62-A46P TCGA-62-A472 TCGA-64-5775 
        0.30         1.58         5.29        19.53        17.75         0.10 
TCGA-64-5815 TCGA-69-7765 TCGA-69-7974 TCGA-71-6725 TCGA-73-4658 TCGA-73-4676 
        7.33         4.24         6.05         2.01        52.57         4.01 
TCGA-78-7145 TCGA-78-7147 TCGA-78-7152 TCGA-78-7153 TCGA-78-7158 TCGA-78-7535 
       27.16        19.27        39.48        24.99         5.88        31.20 
TCGA-78-7539 TCGA-78-7540 TCGA-78-7542 TCGA-83-5908 TCGA-86-7701 TCGA-86-8073 
       10.75        28.96        10.55        13.81         0.36         0.43 
TCGA-86-8074 TCGA-86-8278 TCGA-86-8672 TCGA-86-A456 TCGA-91-6828 TCGA-91-6836 
        0.79         0.76         0.49         0.33         1.22         0.36 
TCGA-93-8067 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-99-8025 
        6.08         1.12         5.36         8.65         5.95        14.04 
TCGA-L4-A4E5 TCGA-L9-A444 
        6.97         0.20 

$subtype4
TCGA-05-5420 TCGA-38-7271 TCGA-38-A44F TCGA-44-5643 TCGA-44-6145 TCGA-44-6774 
        1.02        26.30         4.37         3.48         3.35         5.42 
TCGA-44-6777 TCGA-44-6778 TCGA-44-6779 TCGA-44-7661 TCGA-44-A479 TCGA-44-A47G 
       32.45        36.49        16.41         5.03         8.38         4.44 
TCGA-44-A4SS TCGA-49-4487 TCGA-49-4514 TCGA-49-6743 TCGA-49-6744 TCGA-50-5044 
        3.75        28.11        43.20        12.13        12.99        20.48 
TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 TCGA-50-5066 TCGA-50-5068 TCGA-50-5930 
       71.47        48.82        25.81         9.76        49.28         9.27 
TCGA-50-5939 TCGA-50-5941 TCGA-50-6590 TCGA-50-6592 TCGA-50-6595 TCGA-55-6969 
       15.12         9.37        42.31        25.51         6.21        40.70 
TCGA-55-6971 TCGA-55-6975 TCGA-55-6978 TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 
        0.92         3.88         5.46         7.76         2.20        45.34 
TCGA-55-6984 TCGA-55-6987 TCGA-55-7574 TCGA-55-7726 TCGA-55-7728 TCGA-55-7816 
       24.99        38.47         3.12         1.02         0.79         1.02 
TCGA-55-8089 TCGA-55-8299 TCGA-55-8301 TCGA-55-8510 TCGA-55-8513 TCGA-55-8619 
        3.02         7.07         1.41         7.46         4.80         1.61 
TCGA-55-8621 TCGA-55-A48X TCGA-55-A493 TCGA-64-1679 TCGA-64-5781 TCGA-69-7761 
        3.45         1.08         0.92        55.40        39.52         6.12 
TCGA-69-7978 TCGA-69-8255 TCGA-78-7160 TCGA-86-7711 TCGA-86-7953 TCGA-86-8055 
        2.30         4.21        22.29         0.89         1.12         0.33 
TCGA-86-8076 TCGA-86-8585 TCGA-86-8671 TCGA-86-A4P8 TCGA-91-6830 TCGA-91-6835 
        0.85         1.12         0.56         1.28         0.03         1.15 
TCGA-91-6848 TCGA-93-7347 TCGA-95-7944 TCGA-97-7552 TCGA-97-7553 TCGA-99-8028 
        4.18         9.76         0.69        48.53        43.76        15.06 
TCGA-99-8033 TCGA-J2-A4AG TCGA-L4-A4E6 
        5.56         7.82         2.50 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.07     0.03     0.03 
subtype1 subtype2 subtype3 subtype4 
  223.96    88.11    77.88    71.47 
subtype1 subtype2 subtype3 subtype4 
   7.465    8.380    5.620    5.560 
[1] "0.0 - 224.0 (7.5)" "0.1 - 88.1 (8.4)"  "0.0 - 77.9 (5.6)" 
[4] "0.0 - 71.5 (5.6)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype4" "subtype1"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
 [25] "subtype2" "subtype4" "subtype1" "subtype3" "subtype1" "subtype4"
 [31] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype1"
 [37] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype1" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [49] "subtype1" "subtype4" "subtype4" "subtype2" "subtype4" "subtype3"
 [55] "subtype2" "subtype1" "subtype4" "subtype2" "subtype4" "subtype4"
 [61] "subtype3" "subtype3" "subtype4" "subtype4" "subtype4" "subtype2"
 [67] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [73] "subtype1" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
 [79] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
 [85] "subtype3" "subtype1" "subtype4" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype4" "subtype2" "subtype4" "subtype1"
[103] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[109] "subtype1" "subtype4" "subtype1" "subtype1" "subtype4" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype4" "subtype3" "subtype1"
[121] "subtype4" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype4"
[133] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[145] "subtype3" "subtype4" "subtype2" "subtype4" "subtype4" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[157] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype4"
[163] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[169] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[175] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype4"
[181] "subtype2" "subtype2" "subtype1" "subtype1" "subtype4" "subtype3"
[187] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[205] "subtype4" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
[223] "subtype4" "subtype2" "subtype2" "subtype4" "subtype3" "subtype3"
[229] "subtype2" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[235] "subtype2" "subtype4" "subtype1" "subtype2" "subtype4" "subtype3"
[241] "subtype3" "subtype2" "subtype4" "subtype3" "subtype2" "subtype4"
[247] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[253] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype2"
[259] "subtype3" "subtype4" "subtype2" "subtype1" "subtype1" "subtype1"
[265] "subtype4" "subtype4" "subtype3" "subtype3" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[277] "subtype3" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
[283] "subtype2" "subtype1" "subtype4" "subtype3" "subtype4" "subtype1"
[289] "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype4" "subtype1"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
 [25] "subtype2" "subtype4" "subtype1" "subtype3" "subtype1" "subtype4"
 [31] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype1"
 [37] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype1" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [49] "subtype1" "subtype4" "subtype4" "subtype2" "subtype4" "subtype3"
 [55] "subtype2" "subtype1" "subtype4" "subtype2" "subtype4" "subtype4"
 [61] "subtype3" "subtype3" "subtype4" "subtype4" "subtype4" "subtype2"
 [67] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [73] "subtype1" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
 [79] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
 [85] "subtype3" "subtype1" "subtype4" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype4" "subtype2" "subtype4" "subtype1"
[103] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[109] "subtype1" "subtype4" "subtype1" "subtype1" "subtype4" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype4" "subtype3" "subtype1"
[121] "subtype4" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype4"
[133] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[145] "subtype3" "subtype4" "subtype2" "subtype4" "subtype4" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[157] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype4"
[163] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[169] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[175] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype4"
[181] "subtype2" "subtype2" "subtype1" "subtype1" "subtype4" "subtype3"
[187] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[205] "subtype4" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
[223] "subtype4" "subtype2" "subtype2" "subtype4" "subtype3" "subtype3"
[229] "subtype2" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[235] "subtype2" "subtype4" "subtype1" "subtype2" "subtype4" "subtype3"
[241] "subtype3" "subtype2" "subtype4" "subtype3" "subtype2" "subtype4"
[247] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[253] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype2"
[259] "subtype3" "subtype4" "subtype2" "subtype1" "subtype1" "subtype1"
[265] "subtype4" "subtype4" "subtype3" "subtype3" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[277] "subtype3" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
[283] "subtype2" "subtype1" "subtype4" "subtype3" "subtype4" "subtype1"
[289] "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype3" "subtype4" "subtype1"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
 [25] "subtype2" "subtype4" "subtype1" "subtype3" "subtype1" "subtype4"
 [31] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype1"
 [37] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype1" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [49] "subtype1" "subtype4" "subtype4" "subtype2" "subtype4" "subtype3"
 [55] "subtype2" "subtype1" "subtype4" "subtype2" "subtype4" "subtype4"
 [61] "subtype3" "subtype3" "subtype4" "subtype4" "subtype4" "subtype2"
 [67] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [73] "subtype1" "subtype3" "subtype1" "subtype2" "subtype4" "subtype4"
 [79] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
 [85] "subtype3" "subtype1" "subtype4" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype4" "subtype2" "subtype4" "subtype1"
[103] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[109] "subtype1" "subtype4" "subtype1" "subtype1" "subtype4" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype4" "subtype3" "subtype1"
[121] "subtype4" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype4"
[133] "subtype3" "subtype3" "subtype2" "subtype1" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[145] "subtype3" "subtype4" "subtype2" "subtype4" "subtype4" "subtype2"
[151] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[157] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype4"
[163] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[169] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[175] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype4"
[181] "subtype2" "subtype2" "subtype1" "subtype1" "subtype4" "subtype3"
[187] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[205] "subtype4" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
[223] "subtype4" "subtype2" "subtype2" "subtype4" "subtype3" "subtype3"
[229] "subtype2" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[235] "subtype2" "subtype4" "subtype1" "subtype2" "subtype4" "subtype3"
[241] "subtype3" "subtype2" "subtype4" "subtype3" "subtype2" "subtype4"
[247] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[253] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype2"
[259] "subtype3" "subtype4" "subtype2" "subtype1" "subtype1" "subtype1"
[265] "subtype4" "subtype4" "subtype3" "subtype3" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[277] "subtype3" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
[283] "subtype2" "subtype1" "subtype4" "subtype3" "subtype4" "subtype1"
[289] "subtype3" "subtype2"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 42 26
  subtype2 38 53
  subtype3 43 39
  subtype4 52 30
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42   26
  subtype2   38   53
  subtype3   43   39
  subtype4   52   30
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       42       38       43       52
  MALE         26       53       39       30
D4V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                14
  subtype2                          5                                18
  subtype3                          0                                21
  subtype4                          1                                11
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 31
  subtype2                                                 59
  subtype3                                                 50
  subtype4                                                 55
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          1
  subtype4                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             8
  subtype2                                             2
  subtype3                                             3
  subtype4                                             4
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              0                                  0
  subtype3                              0                                  1
  subtype4                              1                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             4
  subtype2                            0                             4
  subtype3                            0                             5
  subtype4                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             1
  subtype3                                             0
  subtype4                                             2
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            1
  subtype2                            2
  subtype3                            1
  subtype4                            3
D4V5, multiclass
D4V6, binary
          cls
clus        0  1
  subtype1  1 67
  subtype2  6 85
  subtype3  2 80
  subtype4  6 76
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   67
  subtype2    6   85
  subtype3    2   80
  subtype4    6   76
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        6        2        6
  YES       67       85       80       76
D4V7, continuous
D4V8, continuous
          vv
clus       M0 M1 M1A M1B MX
  subtype1 41  1   1   1 22
  subtype2 60  4   0   2 24
  subtype3 49  4   0   0 28
  subtype4 50  2   0   0 30
D4V9, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 46 12  7  0  1
  subtype2 60 13 16  1  1
  subtype3 50 18 13  0  1
  subtype4 51 15 13  0  3
D4V10, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 34  0  0  2
  subtype2 58  2  0  3
  subtype3 52  4  0  4
  subtype4 42  1  1  3
D4V11, multiclass
D4V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       23       18         5        10          7          0
  subtype2       2       19       24         9        12         16          4
  subtype3       1       13       28         9         9         14          3
  subtype4       0       26       22         6        11         12          2
          vv
clus       STAGE IV
  subtype1        3
  subtype2        5
  subtype3        5
  subtype4        3
D4V13, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 47 25
  subtype2 53 18
  subtype3 47 25
subtype1 subtype2 subtype3 
      72       71       72 
subtype1 subtype2 subtype3 
      25       18       25 
$subtype1
TCGA-05-4250 TCGA-05-4384 TCGA-05-4396 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 
        3.98        14.01         9.96        24.03        47.05         8.02 
TCGA-05-4405 TCGA-05-4417 TCGA-05-4422 TCGA-05-4430 TCGA-05-4434 TCGA-05-5423 
       20.05        14.93        12.00        25.02        15.02         4.96 
TCGA-05-5429 TCGA-38-6178 TCGA-44-2656 TCGA-44-2661 TCGA-44-2664 TCGA-44-2665 
        0.99         5.19        19.10         3.39        12.59        13.15 
TCGA-44-3918 TCGA-44-3919 TCGA-44-5645 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 
        6.44         6.21         6.84         3.35         9.93         7.76 
TCGA-44-6775 TCGA-44-6777 TCGA-49-4488 TCGA-49-4501 TCGA-49-4505 TCGA-49-4512 
        2.70        32.45        28.57        46.72        14.07        29.75 
TCGA-49-6743 TCGA-49-6745 TCGA-50-5045 TCGA-50-5049 TCGA-50-5066 TCGA-50-5068 
       12.13         4.93        71.47        48.82         9.76        49.28 
TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 
        8.45        15.12         9.37         4.44        12.26        11.05 
TCGA-50-6597 TCGA-50-6673 TCGA-55-1592 TCGA-55-1596 TCGA-55-6712 TCGA-55-6979 
       33.37         0.72        23.05        45.17         0.79         7.76 
TCGA-55-6981 TCGA-55-6982 TCGA-55-7573 TCGA-55-7911 TCGA-64-1679 TCGA-64-1680 
       45.34        32.71         0.13         0.69        55.40        37.02 
TCGA-64-1681 TCGA-64-5778 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7760 
       44.38        30.44         5.29         4.60        13.87         5.06 
TCGA-73-4675 TCGA-73-4676 TCGA-78-7143 TCGA-78-7145 TCGA-78-7535 TCGA-83-5908 
        1.32         4.01       163.10        27.16        31.20        13.81 
TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6835 TCGA-95-7039 TCGA-95-7948 
        1.22        41.33         0.03         1.15         1.12         4.34 

$subtype2
TCGA-05-4249 TCGA-05-4426 TCGA-05-5420 TCGA-05-5425 TCGA-35-3615 TCGA-38-4626 
       38.07        26.01         1.02         2.96         0.46       120.79 
TCGA-38-4627 TCGA-44-2657 TCGA-44-3396 TCGA-44-3398 TCGA-44-6774 TCGA-44-6776 
       37.71        13.15        10.22         8.32         5.42        63.72 
TCGA-44-7659 TCGA-44-7661 TCGA-44-7670 TCGA-44-7671 TCGA-44-7672 TCGA-49-4486 
        9.80         5.03        17.46        17.59        13.74        76.21 
TCGA-49-4510 TCGA-49-6742 TCGA-49-6744 TCGA-50-5051 TCGA-50-5930 TCGA-50-5932 
       29.46        15.02        12.99        14.96         9.27        35.87 
TCGA-50-7109 TCGA-53-7626 TCGA-53-7813 TCGA-55-6543 TCGA-55-6970 TCGA-55-7574 
        8.38        30.54        13.74         0.07        15.25         3.12 
TCGA-55-7728 TCGA-55-7815 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-7765 
        0.79         1.78         6.12        22.68        13.61         4.24 
TCGA-73-4658 TCGA-73-4659 TCGA-73-4670 TCGA-73-7498 TCGA-73-7499 TCGA-78-7147 
       52.57        23.38         0.46        20.42        17.06        19.27 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 
       20.58        35.93        39.48        32.09         5.88        22.29 
TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 TCGA-78-7166 TCGA-78-7167 TCGA-78-7537 
        7.04       104.15       223.96         8.48        88.11        53.33 
TCGA-78-7539 TCGA-78-7540 TCGA-78-7633 TCGA-86-7713 TCGA-91-6849 TCGA-91-7771 
       10.75        28.96        32.68         0.23         1.15         1.02 
TCGA-93-7348 TCGA-95-7944 TCGA-95-7947 TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 
        4.18         0.69         1.32        31.66        48.53        43.76 
TCGA-97-7554 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-99-7458 
        8.65         5.95         0.59         0.72         8.22 

$subtype3
TCGA-05-4418 TCGA-05-4420 TCGA-05-4427 TCGA-05-5715 TCGA-35-4122 TCGA-35-4123 
        8.98        29.95        26.01         2.04         7.36         5.95 
TCGA-35-5375 TCGA-38-4625 TCGA-38-4629 TCGA-44-2668 TCGA-44-3917 TCGA-44-4112 
        8.68        97.74        28.37         8.09        12.89         4.60 
TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 TCGA-44-6148 TCGA-44-6778 TCGA-44-6779 
        3.48        16.37         0.30         3.12        36.49        16.41 
TCGA-44-7660 TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 TCGA-49-4487 TCGA-49-4494 
        5.33         1.64        18.31        18.87        28.11        35.54 
TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6761 TCGA-50-5044 TCGA-50-5072 
       32.84         8.81        43.20         0.03        20.48         8.05 
TCGA-50-5931 TCGA-50-5933 TCGA-50-5946 TCGA-50-6590 TCGA-50-6591 TCGA-50-6592 
        8.78        77.88        11.47        42.31         3.88        25.51 
TCGA-50-6594 TCGA-50-6595 TCGA-53-7624 TCGA-55-1594 TCGA-55-5899 TCGA-55-6969 
       12.16         6.21        34.26        38.73         2.86        40.70 
TCGA-55-6971 TCGA-55-6978 TCGA-55-7910 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 
        0.92         5.46         6.48        56.81        20.65        39.09 
TCGA-64-5774 TCGA-64-5779 TCGA-64-5781 TCGA-64-5815 TCGA-67-3771 TCGA-71-6725 
       83.84        16.67        39.52         7.33        20.02         2.01 
TCGA-78-7146 TCGA-78-7150 TCGA-78-7153 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 
        5.65        21.86        24.99        19.50        38.50        40.11 
TCGA-78-7536 TCGA-78-7542 TCGA-86-7701 TCGA-86-7711 TCGA-86-7953 TCGA-86-7955 
        8.02        10.55         0.36         0.89         1.12         0.46 
TCGA-91-6831 TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 TCGA-95-7043 TCGA-95-7567 
        1.28         0.36        26.93         4.18         0.07         5.36 

subtype1 subtype2 subtype3 
    0.03     0.07     0.03 
subtype1 subtype2 subtype3 
  163.10   223.96    97.74 
subtype1 subtype2 subtype3 
  12.065   13.740   11.010 
[1] "0.0 - 163.1 (12.1)" "0.1 - 224.0 (13.7)" "0.0 - 97.7 (11.0)" 
  [1] "subtype2" "subtype1" "subtype1" "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" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[187] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[199] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[205] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
  [1] "subtype2" "subtype1" "subtype1" "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" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[187] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[199] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[205] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
  [1] "subtype2" "subtype1" "subtype1" "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" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [79] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [85] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[151] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[187] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[199] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[205] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 53 33
  subtype2 40 35
  subtype3 38 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   53   33
  subtype2   40   35
  subtype3   38   38
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       53       40       38
  MALE         33       35       38
D5V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          2                                19
  subtype2                          3                                21
  subtype3                          1                                12
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 56
  subtype2                                                 36
  subtype3                                                 59
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          3
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             3
  subtype2                                             6
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  1
  subtype2                              0                                  1
  subtype3                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            1                             1
  subtype2                            0                             3
  subtype3                            1                             2
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             1
  subtype2                                             0
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            1
  subtype2                            2
  subtype3                            0
D5V5, multiclass
D5V6, binary
          cls
clus        0  1
  subtype1  5 81
  subtype2  3 72
  subtype3  5 71
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5   81
  subtype2    3   72
  subtype3    5   71
     clus
vv    subtype1 subtype2 subtype3
  NO         5        3        5
  YES       81       72       71
D5V7, continuous
D5V8, continuous
          vv
clus       M0 M1 MX
  subtype1 60  5 19
  subtype2 49  4 22
  subtype3 57  3 15
D5V9, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 45 22 14  1  3
  subtype2 49 13 12  0  1
  subtype3 47 11 17  0  1
D5V10, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 44  2  3  5
  subtype2 44  3  0  1
  subtype3 43  1  0  6
D5V11, multiclass
D5V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       21       22         7        14         14          2
  subtype2       1       18       19         7        11         11          3
  subtype3       0       15       27         5         7         17          2
          vv
clus       STAGE IV
  subtype1        5
  subtype2        5
  subtype3        3
D5V13, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 15  4
  subtype2 47 30
  subtype3 43 20
  subtype4 42 14
subtype1 subtype2 subtype3 subtype4 
      19       77       63       56 
subtype1 subtype2 subtype3 subtype4 
       4       30       20       14 
$subtype1
TCGA-05-4405 TCGA-05-4422 TCGA-05-5420 TCGA-44-6145 TCGA-44-6776 TCGA-49-4505 
       20.05        12.00         1.02         3.35        63.72        14.07 
TCGA-50-5044 TCGA-50-6673 TCGA-55-6970 TCGA-55-7573 TCGA-64-5778 TCGA-78-7152 
       20.48         0.72        15.25         0.13        30.44        39.48 
TCGA-78-7160 TCGA-91-6830 TCGA-91-6835 TCGA-91-7771 TCGA-97-7937 TCGA-97-7941 
       22.29         0.03         1.15         1.02         5.95         0.72 
TCGA-99-7458 
        8.22 

$subtype2
TCGA-05-4249 TCGA-05-4250 TCGA-05-4397 TCGA-05-4398 TCGA-05-4402 TCGA-05-4430 
       38.07         3.98        24.03        47.05         8.02        25.02 
TCGA-05-4434 TCGA-05-5423 TCGA-05-5715 TCGA-35-4122 TCGA-35-4123 TCGA-38-4627 
       15.02         4.96         2.04         7.36         5.95        37.71 
TCGA-38-6178 TCGA-44-2656 TCGA-44-2657 TCGA-44-2661 TCGA-44-2664 TCGA-44-2665 
        5.19        19.10        13.15         3.39        12.59        13.15 
TCGA-44-3918 TCGA-44-3919 TCGA-44-5645 TCGA-44-6147 TCGA-44-6775 TCGA-44-6777 
        6.44         6.21         6.84         7.76         2.70        32.45 
TCGA-44-6779 TCGA-49-4488 TCGA-49-4501 TCGA-49-4512 TCGA-49-6745 TCGA-50-5045 
       16.41        28.57        46.72        29.75         4.93        71.47 
TCGA-50-5049 TCGA-50-5066 TCGA-50-5068 TCGA-50-5933 TCGA-50-5936 TCGA-50-5939 
       48.82         9.76        49.28        77.88         8.45        15.12 
TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-50-6590 TCGA-50-6591 TCGA-50-6593 
        9.37         4.44        12.26        42.31         3.88        11.05 
TCGA-50-6597 TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-55-6712 TCGA-55-6969 
       33.37        23.05        38.73        45.17         0.79        40.70 
TCGA-55-6978 TCGA-55-6979 TCGA-55-6981 TCGA-55-6982 TCGA-55-7911 TCGA-64-1676 
        5.46         7.76        45.34        32.71         0.69        56.81 
TCGA-64-1679 TCGA-64-1680 TCGA-64-1681 TCGA-64-5815 TCGA-67-6215 TCGA-67-6216 
       55.40        37.02        44.38         7.33         5.29         4.60 
TCGA-67-6217 TCGA-71-6725 TCGA-73-7499 TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 
       13.87         2.01        17.06       163.10        27.16        19.27 
TCGA-78-7158 TCGA-78-7535 TCGA-78-7539 TCGA-83-5908 TCGA-91-6828 TCGA-91-6829 
        5.88        31.20        10.75        13.81         1.22        41.33 
TCGA-91-6847 TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-95-7948 
       26.93         4.18         1.12         5.36         4.34 

$subtype3
TCGA-05-4418 TCGA-05-4420 TCGA-05-4427 TCGA-35-5375 TCGA-38-4625 TCGA-38-4629 
        8.98        29.95        26.01         8.68        97.74        28.37 
TCGA-44-2668 TCGA-44-3917 TCGA-44-4112 TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 
        8.09        12.89         4.60         3.48        16.37         0.30 
TCGA-44-6148 TCGA-44-6774 TCGA-44-6778 TCGA-44-7660 TCGA-44-7662 TCGA-44-7667 
        3.12         5.42        36.49         5.33         1.64        18.31 
TCGA-44-7669 TCGA-44-7670 TCGA-49-4487 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 
       18.87        17.46        28.11        32.84         8.81        43.20 
TCGA-49-6743 TCGA-49-6761 TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5946 
       12.13         0.03         8.05         9.27         8.78        11.47 
TCGA-50-6592 TCGA-50-6594 TCGA-50-6595 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 
       25.51        12.16         6.21         8.38        34.26        13.74 
TCGA-55-5899 TCGA-55-6971 TCGA-55-7815 TCGA-55-7910 TCGA-64-1677 TCGA-64-1678 
        2.86         0.92         1.78         6.48        20.65        39.09 
TCGA-64-5774 TCGA-64-5779 TCGA-64-5781 TCGA-67-3771 TCGA-69-7760 TCGA-69-7765 
       83.84        16.67        39.52        20.02         5.06         4.24 
TCGA-78-7146 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 TCGA-78-7159 TCGA-78-7166 
        5.65        21.86        19.50        38.50        40.11         8.48 
TCGA-78-7536 TCGA-78-7542 TCGA-86-7701 TCGA-86-7711 TCGA-86-7953 TCGA-86-7955 
        8.02        10.55         0.36         0.89         1.12         0.46 
TCGA-91-6831 TCGA-91-6836 TCGA-95-7043 
        1.28         0.36         0.07 

$subtype4
TCGA-05-4384 TCGA-05-4396 TCGA-05-4417 TCGA-05-4426 TCGA-05-5425 TCGA-05-5429 
       14.01         9.96        14.93        26.01         2.96         0.99 
TCGA-35-3615 TCGA-38-4626 TCGA-44-3396 TCGA-44-3398 TCGA-44-6146 TCGA-44-7659 
        0.46       120.79        10.22         8.32         9.93         9.80 
TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-49-4486 TCGA-49-4494 TCGA-49-4510 
        5.03        17.59        13.74        76.21        35.54        29.46 
TCGA-49-6742 TCGA-49-6744 TCGA-50-5051 TCGA-50-5932 TCGA-53-7626 TCGA-55-6543 
       15.02        12.99        14.96        35.87        30.54         0.07 
TCGA-55-7574 TCGA-55-7728 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-73-4658 
        3.12         0.79         6.12        22.68        13.61        52.57 
TCGA-73-4659 TCGA-73-4670 TCGA-73-4675 TCGA-73-4676 TCGA-73-7498 TCGA-78-7148 
       23.38         0.46         1.32         4.01        20.42        20.58 
TCGA-78-7149 TCGA-78-7153 TCGA-78-7156 TCGA-78-7161 TCGA-78-7162 TCGA-78-7163 
       35.93        24.99        32.09         7.04       104.15       223.96 
TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-86-7713 TCGA-91-6849 
       88.11        53.33        28.96        32.68         0.23         1.15 
TCGA-93-7348 TCGA-95-7944 TCGA-95-7947 TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 
        4.18         0.69         1.32        31.66        48.53        43.76 
TCGA-97-7554 TCGA-97-7938 
        8.65         0.59 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.69     0.03     0.07 
subtype1 subtype2 subtype3 subtype4 
   63.72   163.10    97.74   223.96 
subtype1 subtype2 subtype3 subtype4 
    8.22    13.15     8.98    14.47 
[1] "0.0 - 63.7 (8.2)"   "0.7 - 163.1 (13.2)" "0.0 - 97.7 (9.0)"  
[4] "0.1 - 224.0 (14.5)"
  [1] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype4" "subtype3" "subtype3" "subtype1"
 [13] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype4" "subtype2" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype4" "subtype4" "subtype3" "subtype2" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype4"
 [49] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype2" "subtype4" "subtype3" "subtype4" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [67] "subtype3" "subtype2" "subtype4" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype3"
 [79] "subtype4" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[103] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[109] "subtype4" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype4" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype4"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[133] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype2"
[151] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[157] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[163] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[169] "subtype4" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
[175] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[181] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
[187] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[199] "subtype4" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[205] "subtype4" "subtype4" "subtype2" "subtype4" "subtype4" "subtype4"
[211] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1"
  [1] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype4" "subtype3" "subtype3" "subtype1"
 [13] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype4" "subtype2" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype4" "subtype4" "subtype3" "subtype2" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype4"
 [49] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype2" "subtype4" "subtype3" "subtype4" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [67] "subtype3" "subtype2" "subtype4" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype3"
 [79] "subtype4" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[103] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[109] "subtype4" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype4" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype4"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[133] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype2"
[151] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[157] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[163] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[169] "subtype4" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
[175] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[181] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
[187] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[199] "subtype4" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[205] "subtype4" "subtype4" "subtype2" "subtype4" "subtype4" "subtype4"
[211] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1"
  [1] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype4" "subtype3" "subtype3" "subtype1"
 [13] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
 [25] "subtype3" "subtype3" "subtype4" "subtype2" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype4" "subtype4" "subtype3" "subtype2" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype4"
 [49] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [55] "subtype3" "subtype2" "subtype4" "subtype3" "subtype4" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [67] "subtype3" "subtype2" "subtype4" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype4" "subtype2" "subtype3" "subtype4" "subtype3"
 [79] "subtype4" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [85] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[103] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[109] "subtype4" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype4" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype4"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[133] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype2"
[151] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[157] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[163] "subtype4" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[169] "subtype4" "subtype2" "subtype3" "subtype1" "subtype4" "subtype4"
[175] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[181] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
[187] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[199] "subtype4" "subtype1" "subtype4" "subtype2" "subtype3" "subtype2"
[205] "subtype4" "subtype4" "subtype2" "subtype4" "subtype4" "subtype4"
[211] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 15  8
  subtype2 56 34
  subtype3 33 33
  subtype4 27 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15    8
  subtype2   56   34
  subtype3   33   33
  subtype4   27   31
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       15       56       33       27
  MALE          8       34       33       31
D6V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          1                                 4
  subtype2                          1                                20
  subtype3                          2                                10
  subtype4                          2                                18
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 12
  subtype2                                                 63
  subtype3                                                 49
  subtype4                                                 27
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          0
  subtype3                                          0
  subtype4                                          3
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             3
  subtype2                                             2
  subtype3                                             2
  subtype4                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  2
  subtype2                              0                                  0
  subtype3                              1                                  0
  subtype4                              0                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             1
  subtype2                            0                             2
  subtype3                            1                             1
  subtype4                            1                             2
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             1
  subtype3                                             0
  subtype4                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            1
  subtype3                            0
  subtype4                            2
D6V5, multiclass
D6V6, binary
          cls
clus        0  1
  subtype1  0 23
  subtype2  4 86
  subtype3  7 59
  subtype4  2 56
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   23
  subtype2    4   86
  subtype3    7   59
  subtype4    2   56
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        4        7        2
  YES       23       86       59       56
D6V7, continuous
D6V8, continuous
          vv
clus       M0 M1 MX
  subtype1 14  1  8
  subtype2 62  6 20
  subtype3 48  2 15
  subtype4 42  3 13
D6V9, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 15  4  4  0  0
  subtype2 48 21 15  1  4
  subtype3 40  9 16  0  1
  subtype4 38 12  8  0  0
D6V10, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 12  0  0  0
  subtype2 47  3  3  4
  subtype3 36  1  0  5
  subtype4 36  2  0  3
D6V11, multiclass
D6V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0        6        6         2         3          4          1
  subtype2       0       21       27         7        13         12          3
  subtype3       1       11       21         5         7         17          1
  subtype4       0       16       14         5         9          9          2
          vv
clus       STAGE IV
  subtype1        1
  subtype2        6
  subtype3        3
  subtype4        3
D6V13, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 44 16
  subtype2 37 10
  subtype3 27 19
  subtype4 21 13
  subtype5 21  3
  subtype6 36  4
  subtype7 20 12
  subtype8 18  2
  subtype9 12  4
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
      60       47       46       34       24       40       32       20 
subtype9 
      16 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
      16       10       19       13        3        4       12        2 
subtype9 
       4 
$subtype1
TCGA-05-4250 TCGA-05-4398 TCGA-05-4405 TCGA-05-4427 TCGA-05-4430 TCGA-05-5423 
        3.98        47.05        20.05        26.01        25.02         4.96 
TCGA-35-4122 TCGA-35-4123 TCGA-38-4632 TCGA-44-2656 TCGA-44-2662 TCGA-44-3396 
        7.36         5.95        44.61        19.10        15.78        10.22 
TCGA-44-3918 TCGA-44-4112 TCGA-44-6777 TCGA-44-7662 TCGA-44-7672 TCGA-44-8117 
        6.44         4.60        32.45         1.64        13.74         8.52 
TCGA-49-4488 TCGA-49-4494 TCGA-49-4505 TCGA-49-6745 TCGA-49-6761 TCGA-50-5045 
       28.57        35.54        14.07         4.93         0.03        71.47 
TCGA-50-5933 TCGA-50-5941 TCGA-50-6593 TCGA-50-6594 TCGA-55-6712 TCGA-55-6979 
       77.88         9.37        11.05        12.16         0.79         7.76 
TCGA-55-6981 TCGA-55-6982 TCGA-55-7281 TCGA-55-7283 TCGA-55-7576 TCGA-55-7727 
       45.34        32.71         0.59         1.12         1.32         1.02 
TCGA-55-7903 TCGA-55-7907 TCGA-55-7911 TCGA-55-8301 TCGA-55-8510 TCGA-64-1676 
        0.62         0.53         0.69         1.41         7.46        56.81 
TCGA-64-5778 TCGA-69-7760 TCGA-69-7765 TCGA-69-7974 TCGA-69-7978 TCGA-69-7980 
       30.44         5.06         4.24         6.05         2.30        12.56 
TCGA-71-6725 TCGA-73-4658 TCGA-73-4662 TCGA-73-4668 TCGA-73-4676 TCGA-78-7145 
        2.01        52.57        29.95        15.35         4.01        27.16 
TCGA-78-7535 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-99-8028 
       31.20         1.12         5.36         8.65         5.95        15.06 

$subtype2
TCGA-05-4249 TCGA-05-4402 TCGA-05-4425 TCGA-38-4628 TCGA-38-6178 TCGA-44-2657 
       38.07         8.02        21.99        49.02         5.19        13.15 
TCGA-44-2659 TCGA-44-3919 TCGA-44-5645 TCGA-44-6775 TCGA-49-4490 TCGA-49-4501 
       17.39         6.21         6.84         2.70        12.66        46.72 
TCGA-49-4512 TCGA-49-6744 TCGA-50-5935 TCGA-50-5944 TCGA-50-6597 TCGA-55-6543 
       29.75        12.99        21.47        12.26        33.37         0.07 
TCGA-55-6980 TCGA-55-8087 TCGA-55-8097 TCGA-55-8514 TCGA-64-1681 TCGA-67-3770 
        2.20         0.69         0.49         6.97        44.38         0.99 
TCGA-67-3772 TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-78-7143 TCGA-78-7147 
       18.84         5.29         4.60        13.87       163.10        19.27 
TCGA-78-7158 TCGA-78-7163 TCGA-78-7539 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 
        5.88       223.96        10.75         0.33         0.79         1.41 
TCGA-86-8279 TCGA-86-8280 TCGA-86-8668 TCGA-93-7347 TCGA-93-7348 TCGA-95-7948 
        0.69         0.53         1.45         9.76         4.18         4.34 
TCGA-97-7546 TCGA-97-7547 TCGA-97-8171 TCGA-97-8177 TCGA-J2-8192 
       31.66        47.18         3.48         4.80         5.03 

$subtype3
TCGA-05-4382 TCGA-05-4397 TCGA-05-4415 TCGA-05-4424 TCGA-35-5375 TCGA-38-4625 
       19.92        24.03         2.96        30.02         8.68        97.74 
TCGA-38-4630 TCGA-38-4631 TCGA-44-5643 TCGA-44-6778 TCGA-44-7660 TCGA-44-7670 
       35.28        11.64         3.48        36.49         5.33        17.46 
TCGA-49-4487 TCGA-49-6743 TCGA-50-5066 TCGA-50-5072 TCGA-50-5931 TCGA-50-5946 
       28.11        12.13         9.76         8.05         8.78        11.47 
TCGA-50-6590 TCGA-50-6591 TCGA-50-6592 TCGA-53-7624 TCGA-55-1592 TCGA-55-1596 
       42.31         3.88        25.51        34.26        23.05        45.17 
TCGA-55-5899 TCGA-55-6968 TCGA-55-6975 TCGA-55-8620 TCGA-62-8399 TCGA-64-5775 
        2.86        42.48         3.88         2.14        68.81         0.10 
TCGA-67-3771 TCGA-69-8255 TCGA-78-7146 TCGA-78-7150 TCGA-78-7155 TCGA-78-7220 
       20.02         4.21         5.65        21.86        38.50        26.53 
TCGA-86-7711 TCGA-86-7955 TCGA-86-8073 TCGA-86-8585 TCGA-91-6829 TCGA-91-6830 
        0.89         0.46         0.43         1.12        41.33         0.03 
TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 TCGA-95-7043 
        0.36        26.93         4.18         0.07 

$subtype4
TCGA-05-4384 TCGA-05-4396 TCGA-05-4422 TCGA-35-3615 TCGA-44-2655 TCGA-44-6776 
       14.01         9.96        12.00         0.46        18.87        63.72 
TCGA-44-7671 TCGA-49-4486 TCGA-49-4510 TCGA-50-5932 TCGA-55-6970 TCGA-55-6972 
       17.59        76.21        29.46        35.87        15.25        48.49 
TCGA-67-3774 TCGA-69-7763 TCGA-69-7764 TCGA-69-8253 TCGA-73-4675 TCGA-73-4677 
       12.66        22.68        13.61         3.25         1.32         1.25 
TCGA-73-7498 TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7156 TCGA-78-7160 
       20.42        20.58        35.93        39.48        32.09        22.29 
TCGA-78-7162 TCGA-78-7166 TCGA-78-7167 TCGA-78-7537 TCGA-78-7633 TCGA-91-6849 
      104.15         8.48        88.11        53.33        32.68         1.15 
TCGA-97-8174 TCGA-97-8179 TCGA-99-8033 TCGA-J2-8194 
        5.36         0.49         5.56         3.72 

$subtype5
TCGA-05-4389 TCGA-05-4403 TCGA-05-4433 TCGA-05-5420 TCGA-05-5425 TCGA-05-5429 
       45.01        19.00        24.00         1.02         2.96         0.99 
TCGA-05-5715 TCGA-44-6146 TCGA-49-4514 TCGA-49-6742 TCGA-50-6673 TCGA-55-6984 
        2.04         9.93        43.20        15.02         0.72        24.99 
TCGA-55-7728 TCGA-55-8092 TCGA-55-8094 TCGA-55-8619 TCGA-69-7761 TCGA-69-8254 
        0.79         0.85         0.13         1.61         6.12         2.50 
TCGA-78-7154 TCGA-78-7540 TCGA-91-7771 TCGA-93-8067 TCGA-97-7552 TCGA-97-7941 
       19.50        28.96         1.02         6.08        48.53         0.72 

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

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

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

$subtype9
TCGA-38-4626 TCGA-38-7271 TCGA-44-2661 TCGA-44-2666 TCGA-50-5942 TCGA-53-7626 
      120.79        26.30         3.39         3.19         4.44        30.54 
TCGA-55-6986 TCGA-55-7227 TCGA-55-7574 TCGA-55-7725 TCGA-55-7914 TCGA-67-3773 
       71.05         2.01         3.12         1.28         0.10        14.04 
TCGA-86-8671 TCGA-97-7553 TCGA-97-7938 TCGA-99-7458 
        0.56        43.76         0.59         8.22 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
    0.03     0.07     0.03     0.46     0.13     0.23     0.20     0.10 
subtype9 
    0.10 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
   77.88   223.96    97.74   104.15    48.53    83.84    55.40    49.28 
subtype9 
  120.79 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
   8.585    6.970   11.555   18.230    4.520   14.335    8.630    6.280 
subtype9 
   3.915 
[1] "0.0 - 77.9 (8.6)"   "0.1 - 224.0 (7.0)"  "0.0 - 97.7 (11.6)" 
[4] "0.5 - 104.2 (18.2)" "0.1 - 48.5 (4.5)"   "0.2 - 83.8 (14.3)" 
[7] "0.2 - 55.4 (8.6)"   "0.1 - 49.3 (6.3)"   "0.1 - 120.8 (3.9)" 
  [1] "subtype2" "subtype1" "subtype3" "subtype4" "subtype5" "subtype6"
  [7] "subtype4" "subtype3" "subtype1" "subtype2" "subtype5" "subtype1"
 [13] "subtype3" "subtype6" "subtype7" "subtype6" "subtype4" "subtype3"
 [19] "subtype2" "subtype7" "subtype1" "subtype1" "subtype6" "subtype5"
 [25] "subtype8" "subtype5" "subtype1" "subtype5" "subtype5" "subtype5"
 [31] "subtype4" "subtype1" "subtype1" "subtype3" "subtype3" "subtype9"
 [37] "subtype7" "subtype2" "subtype7" "subtype3" "subtype3" "subtype1"
 [43] "subtype2" "subtype9" "subtype4" "subtype1" "subtype2" "subtype2"
 [49] "subtype9" "subtype1" "subtype7" "subtype9" "subtype7" "subtype1"
 [55] "subtype7" "subtype1" "subtype2" "subtype1" "subtype3" "subtype6"
 [61] "subtype2" "subtype7" "subtype5" "subtype8" "subtype8" "subtype6"
 [67] "subtype2" "subtype4" "subtype1" "subtype3" "subtype7" "subtype8"
 [73] "subtype3" "subtype7" "subtype1" "subtype6" "subtype6" "subtype3"
 [79] "subtype4" "subtype1" "subtype1" "subtype6" "subtype4" "subtype3"
 [85] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype7"
 [91] "subtype7" "subtype4" "subtype2" "subtype5" "subtype5" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype7" "subtype1" "subtype8"
[103] "subtype6" "subtype8" "subtype3" "subtype8" "subtype3" "subtype3"
[109] "subtype4" "subtype1" "subtype2" "subtype7" "subtype7" "subtype1"
[115] "subtype9" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype7" "subtype2" "subtype5" "subtype6"
[127] "subtype3" "subtype9" "subtype6" "subtype3" "subtype6" "subtype6"
[133] "subtype3" "subtype3" "subtype2" "subtype6" "subtype1" "subtype3"
[139] "subtype6" "subtype4" "subtype6" "subtype4" "subtype3" "subtype7"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype6" "subtype5"
[151] "subtype8" "subtype9" "subtype7" "subtype9" "subtype1" "subtype1"
[157] "subtype8" "subtype9" "subtype1" "subtype9" "subtype7" "subtype1"
[163] "subtype5" "subtype6" "subtype1" "subtype1" "subtype6" "subtype1"
[169] "subtype9" "subtype2" "subtype7" "subtype7" "subtype5" "subtype5"
[175] "subtype2" "subtype7" "subtype1" "subtype1" "subtype8" "subtype8"
[181] "subtype2" "subtype6" "subtype8" "subtype5" "subtype3" "subtype8"
[187] "subtype3" "subtype1" "subtype6" "subtype6" "subtype7" "subtype8"
[193] "subtype2" "subtype6" "subtype3" "subtype1" "subtype6" "subtype7"
[199] "subtype7" "subtype2" "subtype3" "subtype2" "subtype9" "subtype4"
[205] "subtype2" "subtype2" "subtype2" "subtype1" "subtype5" "subtype4"
[211] "subtype4" "subtype1" "subtype6" "subtype1" "subtype1" "subtype8"
[217] "subtype1" "subtype4" "subtype5" "subtype3" "subtype1" "subtype1"
[223] "subtype6" "subtype1" "subtype7" "subtype1" "subtype7" "subtype4"
[229] "subtype1" "subtype4" "subtype4" "subtype8" "subtype2" "subtype1"
[235] "subtype3" "subtype2" "subtype4" "subtype4" "subtype3" "subtype4"
[241] "subtype6" "subtype5" "subtype3" "subtype4" "subtype2" "subtype6"
[247] "subtype4" "subtype6" "subtype4" "subtype2" "subtype4" "subtype4"
[253] "subtype3" "subtype1" "subtype6" "subtype4" "subtype2" "subtype5"
[259] "subtype7" "subtype4" "subtype7" "subtype6" "subtype3" "subtype6"
[265] "subtype6" "subtype3" "subtype6" "subtype2" "subtype3" "subtype2"
[271] "subtype2" "subtype8" "subtype7" "subtype2" "subtype2" "subtype3"
[277] "subtype2" "subtype6" "subtype9" "subtype7" "subtype6" "subtype3"
[283] "subtype3" "subtype6" "subtype8" "subtype3" "subtype3" "subtype3"
[289] "subtype4" "subtype5" "subtype2" "subtype2" "subtype5" "subtype1"
[295] "subtype3" "subtype1" "subtype7" "subtype8" "subtype2" "subtype2"
[301] "subtype2" "subtype5" "subtype9" "subtype1" "subtype1" "subtype9"
[307] "subtype5" "subtype2" "subtype6" "subtype4" "subtype2" "subtype4"
[313] "subtype9" "subtype8" "subtype1" "subtype6" "subtype4" "subtype2"
[319] "subtype4"
  [1] "subtype2" "subtype1" "subtype3" "subtype4" "subtype5" "subtype6"
  [7] "subtype4" "subtype3" "subtype1" "subtype2" "subtype5" "subtype1"
 [13] "subtype3" "subtype6" "subtype7" "subtype6" "subtype4" "subtype3"
 [19] "subtype2" "subtype7" "subtype1" "subtype1" "subtype6" "subtype5"
 [25] "subtype8" "subtype5" "subtype1" "subtype5" "subtype5" "subtype5"
 [31] "subtype4" "subtype1" "subtype1" "subtype3" "subtype3" "subtype9"
 [37] "subtype7" "subtype2" "subtype7" "subtype3" "subtype3" "subtype1"
 [43] "subtype2" "subtype9" "subtype4" "subtype1" "subtype2" "subtype2"
 [49] "subtype9" "subtype1" "subtype7" "subtype9" "subtype7" "subtype1"
 [55] "subtype7" "subtype1" "subtype2" "subtype1" "subtype3" "subtype6"
 [61] "subtype2" "subtype7" "subtype5" "subtype8" "subtype8" "subtype6"
 [67] "subtype2" "subtype4" "subtype1" "subtype3" "subtype7" "subtype8"
 [73] "subtype3" "subtype7" "subtype1" "subtype6" "subtype6" "subtype3"
 [79] "subtype4" "subtype1" "subtype1" "subtype6" "subtype4" "subtype3"
 [85] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype7"
 [91] "subtype7" "subtype4" "subtype2" "subtype5" "subtype5" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype7" "subtype1" "subtype8"
[103] "subtype6" "subtype8" "subtype3" "subtype8" "subtype3" "subtype3"
[109] "subtype4" "subtype1" "subtype2" "subtype7" "subtype7" "subtype1"
[115] "subtype9" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype7" "subtype2" "subtype5" "subtype6"
[127] "subtype3" "subtype9" "subtype6" "subtype3" "subtype6" "subtype6"
[133] "subtype3" "subtype3" "subtype2" "subtype6" "subtype1" "subtype3"
[139] "subtype6" "subtype4" "subtype6" "subtype4" "subtype3" "subtype7"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype6" "subtype5"
[151] "subtype8" "subtype9" "subtype7" "subtype9" "subtype1" "subtype1"
[157] "subtype8" "subtype9" "subtype1" "subtype9" "subtype7" "subtype1"
[163] "subtype5" "subtype6" "subtype1" "subtype1" "subtype6" "subtype1"
[169] "subtype9" "subtype2" "subtype7" "subtype7" "subtype5" "subtype5"
[175] "subtype2" "subtype7" "subtype1" "subtype1" "subtype8" "subtype8"
[181] "subtype2" "subtype6" "subtype8" "subtype5" "subtype3" "subtype8"
[187] "subtype3" "subtype1" "subtype6" "subtype6" "subtype7" "subtype8"
[193] "subtype2" "subtype6" "subtype3" "subtype1" "subtype6" "subtype7"
[199] "subtype7" "subtype2" "subtype3" "subtype2" "subtype9" "subtype4"
[205] "subtype2" "subtype2" "subtype2" "subtype1" "subtype5" "subtype4"
[211] "subtype4" "subtype1" "subtype6" "subtype1" "subtype1" "subtype8"
[217] "subtype1" "subtype4" "subtype5" "subtype3" "subtype1" "subtype1"
[223] "subtype6" "subtype1" "subtype7" "subtype1" "subtype7" "subtype4"
[229] "subtype1" "subtype4" "subtype4" "subtype8" "subtype2" "subtype1"
[235] "subtype3" "subtype2" "subtype4" "subtype4" "subtype3" "subtype4"
[241] "subtype6" "subtype5" "subtype3" "subtype4" "subtype2" "subtype6"
[247] "subtype4" "subtype6" "subtype4" "subtype2" "subtype4" "subtype4"
[253] "subtype3" "subtype1" "subtype6" "subtype4" "subtype2" "subtype5"
[259] "subtype7" "subtype4" "subtype7" "subtype6" "subtype3" "subtype6"
[265] "subtype6" "subtype3" "subtype6" "subtype2" "subtype3" "subtype2"
[271] "subtype2" "subtype8" "subtype7" "subtype2" "subtype2" "subtype3"
[277] "subtype2" "subtype6" "subtype9" "subtype7" "subtype6" "subtype3"
[283] "subtype3" "subtype6" "subtype8" "subtype3" "subtype3" "subtype3"
[289] "subtype4" "subtype5" "subtype2" "subtype2" "subtype5" "subtype1"
[295] "subtype3" "subtype1" "subtype7" "subtype8" "subtype2" "subtype2"
[301] "subtype2" "subtype5" "subtype9" "subtype1" "subtype1" "subtype9"
[307] "subtype5" "subtype2" "subtype6" "subtype4" "subtype2" "subtype4"
[313] "subtype9" "subtype8" "subtype1" "subtype6" "subtype4" "subtype2"
[319] "subtype4"
  [1] "subtype2" "subtype1" "subtype3" "subtype4" "subtype5" "subtype6"
  [7] "subtype4" "subtype3" "subtype1" "subtype2" "subtype5" "subtype1"
 [13] "subtype3" "subtype6" "subtype7" "subtype6" "subtype4" "subtype3"
 [19] "subtype2" "subtype7" "subtype1" "subtype1" "subtype6" "subtype5"
 [25] "subtype8" "subtype5" "subtype1" "subtype5" "subtype5" "subtype5"
 [31] "subtype4" "subtype1" "subtype1" "subtype3" "subtype3" "subtype9"
 [37] "subtype7" "subtype2" "subtype7" "subtype3" "subtype3" "subtype1"
 [43] "subtype2" "subtype9" "subtype4" "subtype1" "subtype2" "subtype2"
 [49] "subtype9" "subtype1" "subtype7" "subtype9" "subtype7" "subtype1"
 [55] "subtype7" "subtype1" "subtype2" "subtype1" "subtype3" "subtype6"
 [61] "subtype2" "subtype7" "subtype5" "subtype8" "subtype8" "subtype6"
 [67] "subtype2" "subtype4" "subtype1" "subtype3" "subtype7" "subtype8"
 [73] "subtype3" "subtype7" "subtype1" "subtype6" "subtype6" "subtype3"
 [79] "subtype4" "subtype1" "subtype1" "subtype6" "subtype4" "subtype3"
 [85] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype7"
 [91] "subtype7" "subtype4" "subtype2" "subtype5" "subtype5" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype7" "subtype1" "subtype8"
[103] "subtype6" "subtype8" "subtype3" "subtype8" "subtype3" "subtype3"
[109] "subtype4" "subtype1" "subtype2" "subtype7" "subtype7" "subtype1"
[115] "subtype9" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype1" "subtype1" "subtype7" "subtype2" "subtype5" "subtype6"
[127] "subtype3" "subtype9" "subtype6" "subtype3" "subtype6" "subtype6"
[133] "subtype3" "subtype3" "subtype2" "subtype6" "subtype1" "subtype3"
[139] "subtype6" "subtype4" "subtype6" "subtype4" "subtype3" "subtype7"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype6" "subtype5"
[151] "subtype8" "subtype9" "subtype7" "subtype9" "subtype1" "subtype1"
[157] "subtype8" "subtype9" "subtype1" "subtype9" "subtype7" "subtype1"
[163] "subtype5" "subtype6" "subtype1" "subtype1" "subtype6" "subtype1"
[169] "subtype9" "subtype2" "subtype7" "subtype7" "subtype5" "subtype5"
[175] "subtype2" "subtype7" "subtype1" "subtype1" "subtype8" "subtype8"
[181] "subtype2" "subtype6" "subtype8" "subtype5" "subtype3" "subtype8"
[187] "subtype3" "subtype1" "subtype6" "subtype6" "subtype7" "subtype8"
[193] "subtype2" "subtype6" "subtype3" "subtype1" "subtype6" "subtype7"
[199] "subtype7" "subtype2" "subtype3" "subtype2" "subtype9" "subtype4"
[205] "subtype2" "subtype2" "subtype2" "subtype1" "subtype5" "subtype4"
[211] "subtype4" "subtype1" "subtype6" "subtype1" "subtype1" "subtype8"
[217] "subtype1" "subtype4" "subtype5" "subtype3" "subtype1" "subtype1"
[223] "subtype6" "subtype1" "subtype7" "subtype1" "subtype7" "subtype4"
[229] "subtype1" "subtype4" "subtype4" "subtype8" "subtype2" "subtype1"
[235] "subtype3" "subtype2" "subtype4" "subtype4" "subtype3" "subtype4"
[241] "subtype6" "subtype5" "subtype3" "subtype4" "subtype2" "subtype6"
[247] "subtype4" "subtype6" "subtype4" "subtype2" "subtype4" "subtype4"
[253] "subtype3" "subtype1" "subtype6" "subtype4" "subtype2" "subtype5"
[259] "subtype7" "subtype4" "subtype7" "subtype6" "subtype3" "subtype6"
[265] "subtype6" "subtype3" "subtype6" "subtype2" "subtype3" "subtype2"
[271] "subtype2" "subtype8" "subtype7" "subtype2" "subtype2" "subtype3"
[277] "subtype2" "subtype6" "subtype9" "subtype7" "subtype6" "subtype3"
[283] "subtype3" "subtype6" "subtype8" "subtype3" "subtype3" "subtype3"
[289] "subtype4" "subtype5" "subtype2" "subtype2" "subtype5" "subtype1"
[295] "subtype3" "subtype1" "subtype7" "subtype8" "subtype2" "subtype2"
[301] "subtype2" "subtype5" "subtype9" "subtype1" "subtype1" "subtype9"
[307] "subtype5" "subtype2" "subtype6" "subtype4" "subtype2" "subtype4"
[313] "subtype9" "subtype8" "subtype1" "subtype6" "subtype4" "subtype2"
[319] "subtype4"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 37 31
  subtype2 43  7
  subtype3 20 30
  subtype4 10 29
  subtype5  9 17
  subtype6 21 22
  subtype7 20 16
  subtype8 13  8
  subtype9 18  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37   31
  subtype2   43    7
  subtype3   20   30
  subtype4   10   29
  subtype5    9   17
  subtype6   21   22
  subtype7   20   16
  subtype8   13    8
  subtype9   18    3
D7V4, continuous
[1] "Remove cluster labels:" "subtype4"               "subtype8"              
clus
subtype1 subtype2 subtype3 subtype4 subtype6 subtype7 subtype8 subtype9 
       9        4        3        1        5        3        1        3 
 [1] "subtype1" "subtype1" "subtype3" "subtype1" "subtype9" "subtype6"
 [7] "subtype9" "subtype6" "subtype2" "subtype1" "subtype1" "subtype1"
[13] "subtype6" "subtype1" "subtype7" "subtype1" "subtype1" "subtype7"
[19] "subtype7" "subtype6" "subtype3" "subtype6" "subtype2" "subtype2"
[25] "subtype3" "subtype2" "subtype9"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          1                                14
  subtype2                          2                                 9
  subtype3                          0                                10
  subtype4                          1                                16
  subtype5                          2                                 6
  subtype6                          3                                 8
  subtype7                          0                                 6
  subtype8                          1                                 5
  subtype9                          0                                 1
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 46
  subtype2                                                 30
  subtype3                                                 32
  subtype4                                                 15
  subtype5                                                 11
  subtype6                                                 28
  subtype7                                                 27
  subtype8                                                 11
  subtype9                                                 14
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          0
  subtype2                                          2
  subtype3                                          0
  subtype4                                          0
  subtype5                                          2
  subtype6                                          0
  subtype7                                          0
  subtype8                                          0
  subtype9                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             2
  subtype2                                             4
  subtype3                                             2
  subtype4                                             2
  subtype5                                             0
  subtype6                                             2
  subtype7                                             0
  subtype8                                             1
  subtype9                                             4
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  2
  subtype2                              0                                  0
  subtype3                              1                                  0
  subtype4                              0                                  0
  subtype5                              0                                  0
  subtype6                              1                                  0
  subtype7                              0                                  0
  subtype8                              0                                  0
  subtype9                              0                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            0                             3
  subtype2                            0                             3
  subtype3                            0                             2
  subtype4                            0                             5
  subtype5                            1                             1
  subtype6                            0                             0
  subtype7                            0                             1
  subtype8                            1                             1
  subtype9                            0                             1
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             3
  subtype4                                             0
  subtype5                                             0
  subtype6                                             0
  subtype7                                             0
  subtype8                                             0
  subtype9                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            0
  subtype2                            0
  subtype3                            0
  subtype4                            0
  subtype5                            3
  subtype6                            1
  subtype7                            2
  subtype8                            1
  subtype9                            0
D7V5, multiclass
D7V6, binary
          cls
clus        0  1
  subtype1  4 64
  subtype2  1 49
  subtype3  3 47
  subtype4  1 38
  subtype5  0 26
  subtype6  2 41
  subtype7  2 34
  subtype8  1 20
  subtype9  3 18
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   64
  subtype2    1   49
  subtype3    3   47
  subtype4    1   38
  subtype5    0   26
  subtype6    2   41
  subtype7    2   34
  subtype8    1   20
  subtype9    3   18
D7V7, continuous
D7V8, continuous
          vv
clus       M0 M1 M1A M1B MX
  subtype1 45  3   0   0 20
  subtype2 32  2   1   0 13
  subtype3 34  3   0   1 12
  subtype4 29  4   0   0  6
  subtype5 15  0   0   1  9
  subtype6 32  1   0   0  9
  subtype7 30  2   0   0  4
  subtype8  9  2   0   1  9
  subtype9 16  0   0   0  5
D7V9, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 32 19 15  1  1
  subtype2 32  9  6  0  2
  subtype3 31  9 10  0  0
  subtype4 24  9  4  0  2
  subtype5 19  3  3  0  0
  subtype6 30  4  8  0  1
  subtype7 22  8  6  0  0
  subtype8 14  4  2  0  1
  subtype9 14  6  1  0  0
D7V10, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 37  1  1  3
  subtype2 30  3  1  2
  subtype3 27  2  0  1
  subtype4 24  0  0  2
  subtype5 15  0  0  2
  subtype6 28  1  0  1
  subtype7 25  1  1  0
  subtype8 12  0  1  1
  subtype9 15  1  0  0
D7V11, multiclass
D7V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       1       13       17         7        10         14          2
  subtype2       0       14       17         5         5          4          2
  subtype3       0       11       17         3         5         10          1
  subtype4       0       10       10         2         7          4          2
  subtype5       0        4       10         0         7          3          0
  subtype6       1        7       15         4         5          9          1
  subtype7       0        9        8         2         7          6          2
  subtype8       0        9        4         1         3          1          0
  subtype9       0        5        5         4         2          4          0
          vv
clus       STAGE IV
  subtype1        4
  subtype2        3
  subtype3        3
  subtype4        4
  subtype5        1
  subtype6        1
  subtype7        2
  subtype8        3
  subtype9        0
D7V13, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1 103  29
  subtype2  59  25
  subtype3  74  29
subtype1 subtype2 subtype3 
     132       84      103 
subtype1 subtype2 subtype3 
      29       25       29 
$subtype1
TCGA-05-4249 TCGA-05-4384 TCGA-05-4396 TCGA-05-4403 TCGA-05-4422 TCGA-05-4425 
       38.07        14.01         9.96        19.00        12.00        21.99 
TCGA-05-4430 TCGA-05-4433 TCGA-05-4434 TCGA-05-5423 TCGA-05-5429 TCGA-05-5715 
       25.02        24.00        15.02         4.96         0.99         2.04 
TCGA-35-3615 TCGA-38-4626 TCGA-38-4627 TCGA-38-7271 TCGA-44-2655 TCGA-44-2657 
        0.46       120.79        37.71        26.30        18.87        13.15 
TCGA-44-2659 TCGA-44-2661 TCGA-44-2666 TCGA-44-3919 TCGA-44-5645 TCGA-44-6146 
       17.39         3.39         3.19         6.21         6.84         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-7659 TCGA-44-7670 TCGA-44-7671 
        7.76         3.12        63.72         9.80        17.46        17.59 
TCGA-44-7672 TCGA-49-4486 TCGA-49-4501 TCGA-49-4510 TCGA-49-4512 TCGA-49-6744 
       13.74        76.21        46.72        29.46        29.75        12.99 
TCGA-50-5045 TCGA-50-5049 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5935 
       71.47        48.82        25.81        49.28        35.87        21.47 
TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 TCGA-50-6673 TCGA-53-7626 
        4.44        12.26        11.05        33.37         0.72        30.54 
TCGA-55-6543 TCGA-55-6972 TCGA-55-6982 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 
        0.07        48.49        32.71        60.03        24.99        40.54 
TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 TCGA-55-7725 
       71.05         2.01         0.59         1.12         0.13         1.28 
TCGA-55-7728 TCGA-55-7914 TCGA-55-8087 TCGA-55-8090 TCGA-55-8097 TCGA-55-8512 
        0.79         0.10         0.69         0.20         0.49         0.10 
TCGA-55-8513 TCGA-55-8616 TCGA-55-8619 TCGA-55-8621 TCGA-64-1680 TCGA-64-1681 
        4.80         1.58         1.61         3.45        37.02        44.38 
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         5.29         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-78-7143 TCGA-78-7147 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 TCGA-78-7156 
      163.10        19.27        35.93        39.48        24.99        32.09 
TCGA-78-7158 TCGA-78-7162 TCGA-78-7163 TCGA-78-7167 TCGA-78-7537 TCGA-78-7539 
        5.88       104.15       223.96        88.11        53.33        10.75 
TCGA-78-7540 TCGA-78-7633 TCGA-86-7953 TCGA-86-8076 TCGA-86-8278 TCGA-86-8280 
       28.96        32.68         1.12         0.85         0.76         0.53 
TCGA-86-8668 TCGA-86-8671 TCGA-91-6835 TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 
        1.45         0.56         1.15         1.15         1.02         9.76 
TCGA-93-7348 TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 TCGA-97-7547 TCGA-97-7552 
        4.18         1.32         4.34        31.66        47.18        48.53 
TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 
       43.76         0.59         0.72         3.48         5.95         5.36 
TCGA-97-8177 TCGA-97-8179 TCGA-99-7458 TCGA-99-8025 TCGA-99-8028 TCGA-J2-8194 
        4.80         0.49         8.22        14.04        15.06         3.72 

$subtype2
TCGA-05-4250 TCGA-05-4398 TCGA-05-4402 TCGA-05-4405 TCGA-05-4426 TCGA-05-4427 
        3.98        47.05         8.02        20.05        26.01        26.01 
TCGA-35-4122 TCGA-35-4123 TCGA-38-4625 TCGA-38-4628 TCGA-38-4629 TCGA-38-4632 
        7.36         5.95        97.74        49.02        28.37        44.61 
TCGA-38-6178 TCGA-44-2656 TCGA-44-2662 TCGA-44-2665 TCGA-44-2668 TCGA-44-3396 
        5.19        19.10        15.78        13.15         8.09        10.22 
TCGA-44-3398 TCGA-44-3918 TCGA-44-4112 TCGA-44-6775 TCGA-44-6777 TCGA-44-7661 
        8.32         6.44         4.60         2.70        32.45         5.03 
TCGA-44-7662 TCGA-44-8117 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4505 
        1.64         8.52        28.57        12.66        35.54        14.07 
TCGA-49-6745 TCGA-49-6761 TCGA-50-5044 TCGA-50-5066 TCGA-50-5933 TCGA-50-5941 
        4.93         0.03        20.48         9.76        77.88         9.37 
TCGA-50-6590 TCGA-50-6594 TCGA-50-6595 TCGA-55-1595 TCGA-55-6712 TCGA-55-6978 
       42.31        12.16         6.21        48.62         0.79         5.46 
TCGA-55-6979 TCGA-55-6980 TCGA-55-6981 TCGA-55-7576 TCGA-55-7727 TCGA-55-7903 
        7.76         2.20        45.34         1.32         1.02         0.62 
TCGA-55-7907 TCGA-55-7911 TCGA-55-8301 TCGA-55-8510 TCGA-55-8514 TCGA-64-1676 
        0.53         0.69         1.41         7.46         6.97        56.81 
TCGA-64-1677 TCGA-64-1679 TCGA-64-5775 TCGA-64-5778 TCGA-64-5815 TCGA-69-7760 
       20.65        55.40         0.10        30.44         7.33         5.06 
TCGA-69-7765 TCGA-69-7978 TCGA-71-6725 TCGA-73-4658 TCGA-73-4666 TCGA-73-4668 
        4.24         2.30         2.01        52.57        20.28        15.35 
TCGA-73-4676 TCGA-73-7499 TCGA-78-7145 TCGA-78-7146 TCGA-78-7535 TCGA-78-7542 
        4.01        17.06        27.16         5.65        31.20        10.55 
TCGA-83-5908 TCGA-86-8055 TCGA-86-8074 TCGA-86-8075 TCGA-86-8279 TCGA-91-6836 
       13.81         0.33         0.79         1.41         0.69         0.36 
TCGA-91-6848 TCGA-95-7039 TCGA-95-7567 TCGA-97-7554 TCGA-97-7937 TCGA-J2-8192 
        4.18         1.12         5.36         8.65         5.95         5.03 

$subtype3
TCGA-05-4382 TCGA-05-4389 TCGA-05-4390 TCGA-05-4397 TCGA-05-4415 TCGA-05-4417 
       19.92        45.01        37.02        24.03         2.96        14.93 
TCGA-05-4418 TCGA-05-4420 TCGA-05-4424 TCGA-05-4432 TCGA-05-5420 TCGA-05-5425 
        8.98        29.95        30.02        25.02         1.02         2.96 
TCGA-35-5375 TCGA-38-4630 TCGA-38-4631 TCGA-44-5643 TCGA-44-5644 TCGA-44-6145 
        8.68        35.28        11.64         3.48        16.37         3.35 
TCGA-44-6774 TCGA-44-6778 TCGA-44-6779 TCGA-44-7660 TCGA-44-7667 TCGA-44-7669 
        5.42        36.49        16.41         5.33        18.31        18.87 
TCGA-44-8119 TCGA-49-4487 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 
        3.22        28.11        32.84         8.81        43.20        15.02 
TCGA-49-6743 TCGA-50-5051 TCGA-50-5072 TCGA-50-5931 TCGA-50-5936 TCGA-50-5939 
       12.13        14.96         8.05         8.78         8.45        15.12 
TCGA-50-5946 TCGA-50-6591 TCGA-50-6592 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 
       11.47         3.88        25.51         8.38        34.26        13.74 
TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 
       23.05        38.73        45.17         2.86        32.61        42.48 
TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 TCGA-55-6975 TCGA-55-6987 TCGA-55-7574 
       40.70        15.25         0.92         3.88        38.47         3.12 
TCGA-55-7726 TCGA-55-7815 TCGA-55-7910 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 
        1.02         1.78         6.48         3.02         0.85         0.13 
TCGA-55-8299 TCGA-55-8615 TCGA-55-8620 TCGA-62-8399 TCGA-64-1678 TCGA-64-5774 
        7.07         0.49         2.14        68.81        39.09        83.84 
TCGA-64-5779 TCGA-64-5781 TCGA-67-3771 TCGA-69-7973 TCGA-69-7980 TCGA-69-8255 
       16.67        39.52        20.02         7.56        12.56         4.21 
TCGA-73-4659 TCGA-73-4670 TCGA-78-7148 TCGA-78-7150 TCGA-78-7154 TCGA-78-7155 
       23.38         0.46        20.58        21.86        19.50        38.50 
TCGA-78-7159 TCGA-78-7160 TCGA-78-7161 TCGA-78-7166 TCGA-78-7220 TCGA-78-7536 
       40.11        22.29         7.04         8.48        26.53         8.02 
TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7955 TCGA-86-8054 TCGA-86-8073 
        0.36         0.89         0.23         0.46         0.62         0.43 
TCGA-86-8585 TCGA-86-8669 TCGA-86-8672 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 
        1.12         1.08         0.49         1.22        41.33         0.03 
TCGA-91-6831 TCGA-91-6847 TCGA-93-8067 TCGA-95-7043 TCGA-95-7944 TCGA-99-8032 
        1.28        26.93         6.08         0.07         0.69         1.45 
TCGA-99-8033 
        5.56 

subtype1 subtype2 subtype3 
    0.07     0.03     0.03 
subtype1 subtype2 subtype3 
  223.96    97.74    83.84 
subtype1 subtype2 subtype3 
  11.525    7.890    8.980 
[1] "0.1 - 224.0 (11.5)" "0.0 - 97.7 (7.9)"   "0.0 - 83.8 (9.0)"  
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [19] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [31] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [37] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [61] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [67] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[115] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[181] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[217] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[229] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[235] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[241] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[247] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[253] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[259] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[265] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[271] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[283] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[301] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[313] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[319] "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [19] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [31] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [37] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [61] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [67] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[115] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[181] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[217] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[229] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[235] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[241] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[247] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[253] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[259] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[265] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[271] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[283] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[301] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[313] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[319] "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [19] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [31] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [37] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [61] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [67] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[115] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[127] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[181] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[193] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[217] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[229] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[235] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[241] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[247] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[253] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[259] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[265] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[271] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[277] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[283] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[301] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[313] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[319] "subtype1"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 94 52
  subtype2 53 43
  subtype3 44 68
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   94   52
  subtype2   53   43
  subtype3   44   68
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       94       53       44
  MALE         52       43       68
D8V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          7                                36
  subtype2                          1                                16
  subtype3                          2                                23
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 72
  subtype2                                                 68
  subtype3                                                 74
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          4
  subtype2                                          0
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             4
  subtype3                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              1                                  2
  subtype3                              1                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             9
  subtype2                            0                             4
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             3
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            5
  subtype2                            0
  subtype3                            2
D8V5, multiclass
D8V6, binary
          cls
clus         0   1
  subtype1   5 141
  subtype2   4  92
  subtype3   8 104
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5  141
  subtype2    4   92
  subtype3    8  104
     clus
vv    subtype1 subtype2 subtype3
  NO         5        4        8
  YES      141       92      104
D8V7, continuous
D8V8, continuous
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 100   6   1   1  36
  subtype2  66   4   0   0  25
  subtype3  76   7   0   2  26
D8V9, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 97 29 15  0  3
  subtype2 51 24 18  1  2
  subtype3 70 18 22  0  2
D8V10, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 84  2  2  6
  subtype2 60  2  2  3
  subtype3 69  5  0  3
D8V11, multiclass
D8V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       46       39        12        21         15          3
  subtype2       0       12       33        10        13         19          4
  subtype3       2       24       31         6        17         21          3
          vv
clus       STAGE IV
  subtype1        8
  subtype2        5
  subtype3        8
D8V13, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 101  27
  subtype2 109  38
  subtype3  55  20
subtype1 subtype2 subtype3 
     128      147       75 
subtype1 subtype2 subtype3 
      27       38       20 
$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        18.87        13.15 
TCGA-44-2661 TCGA-44-2666 TCGA-44-3398 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 
        3.39         3.19         8.32         6.21         4.60         6.84 
TCGA-44-6145 TCGA-44-6146 TCGA-44-6148 TCGA-44-6776 TCGA-44-6777 TCGA-44-7659 
        3.35         9.93         3.12        63.72        32.45         9.80 
TCGA-44-7661 TCGA-44-7671 TCGA-44-7672 TCGA-44-A47F TCGA-44-A47G TCGA-49-4486 
        5.03        17.59        13.74         8.09         4.44        76.21 
TCGA-49-4487 TCGA-49-4505 TCGA-49-4510 TCGA-49-6744 TCGA-49-6745 TCGA-50-5045 
       28.11        14.07        29.46        12.99         4.93        71.47 
TCGA-50-5051 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5936 TCGA-50-5941 
       14.96        25.81        49.28        35.87         8.45         9.37 
TCGA-50-5942 TCGA-50-5944 TCGA-53-7626 TCGA-55-6712 TCGA-55-6970 TCGA-55-6972 
        4.44        12.26        30.54         0.79        15.25        48.49 
TCGA-55-6984 TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 
       24.99        71.05         2.01         0.59         1.12         0.13 
TCGA-55-7576 TCGA-55-7725 TCGA-55-7727 TCGA-55-7903 TCGA-55-7911 TCGA-55-7914 
        1.32         1.28         1.02         0.62         0.69         0.10 
TCGA-55-8090 TCGA-55-8097 TCGA-55-8510 TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 
        0.20         0.49         7.46         0.10         4.80         1.61 
TCGA-55-8621 TCGA-55-A48X TCGA-55-A492 TCGA-62-8399 TCGA-62-A472 TCGA-64-1680 
        3.45         1.08         0.03        68.81        17.75        37.02 
TCGA-64-1681 TCGA-64-5778 TCGA-64-5815 TCGA-67-3770 TCGA-67-3773 TCGA-67-3774 
       44.38        30.44         7.33         0.99        14.04        12.66 
TCGA-67-6215 TCGA-67-6216 TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 
        5.29         4.60        13.87         6.12        22.68        13.61 
TCGA-69-7765 TCGA-69-8253 TCGA-69-8254 TCGA-73-4676 TCGA-73-7498 TCGA-78-7143 
        4.24         3.25         2.50         4.01        20.42       163.10 
TCGA-78-7145 TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7153 TCGA-78-7154 
       27.16        20.58        35.93        39.48        24.99        19.50 
TCGA-78-7156 TCGA-78-7160 TCGA-78-7162 TCGA-78-7166 TCGA-78-7167 TCGA-78-7537 
       32.09        22.29       104.15         8.48        88.11        53.33 
TCGA-78-7540 TCGA-78-7633 TCGA-86-8076 TCGA-86-8278 TCGA-86-8280 TCGA-86-8668 
       28.96        32.68         0.85         0.76         0.53         1.45 
TCGA-86-A4P8 TCGA-91-6835 TCGA-91-6849 TCGA-91-7771 TCGA-93-7347 TCGA-95-7567 
        1.28         1.15         1.15         1.02         9.76         5.36 
TCGA-95-7947 TCGA-95-7948 TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 
        1.32         4.34        31.66        48.53        43.76         0.59 
TCGA-97-7941 TCGA-97-8174 TCGA-97-8179 TCGA-99-7458 TCGA-99-8028 TCGA-J2-A4AE 
        0.72         5.36         0.49         8.22        15.06         9.27 
TCGA-J2-A4AG TCGA-L4-A4E6 
        7.82         2.50 

$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-05-4418 TCGA-05-4420 TCGA-05-4422 TCGA-05-4424 
        8.02         2.96         8.98        29.95        12.00        30.02 
TCGA-05-4430 TCGA-05-4432 TCGA-05-4433 TCGA-05-4434 TCGA-05-5420 TCGA-05-5423 
       25.02        25.02        24.00        15.02         1.02         4.96 
TCGA-05-5425 TCGA-05-5715 TCGA-35-4123 TCGA-35-5375 TCGA-38-4625 TCGA-38-4628 
        2.96         2.04         5.95         8.68        97.74        49.02 
TCGA-38-4630 TCGA-38-4632 TCGA-44-2656 TCGA-44-2659 TCGA-44-2662 TCGA-44-3396 
       35.28        44.61        19.10        17.39        15.78        10.22 
TCGA-44-3918 TCGA-44-5643 TCGA-44-5644 TCGA-44-7660 TCGA-44-7670 TCGA-44-8117 
        6.44         3.48        16.37         5.33        17.46         8.52 
TCGA-44-8119 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 
        3.22         6.64         3.75        28.57        12.66        35.54 
TCGA-49-4501 TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6743 TCGA-50-5049 
       46.72        32.84         8.81        43.20        12.13        48.82 
TCGA-50-5066 TCGA-50-5930 TCGA-50-5931 TCGA-50-5935 TCGA-50-5946 TCGA-50-6590 
        9.76         9.27         8.78        21.47        11.47        42.31 
TCGA-50-6592 TCGA-50-6597 TCGA-50-6673 TCGA-53-7624 TCGA-53-7813 TCGA-55-1592 
       25.51        33.37         0.72        34.26        13.74        23.05 
TCGA-55-1594 TCGA-55-1595 TCGA-55-1596 TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 
       38.73        48.62        45.17         2.86        42.48        40.70 
TCGA-55-6979 TCGA-55-6981 TCGA-55-6987 TCGA-55-7728 TCGA-55-7815 TCGA-55-7907 
        7.76        45.34        38.47         0.79         1.78         0.53 
TCGA-55-7910 TCGA-55-8087 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 TCGA-55-8301 
        6.48         0.69         3.02         0.85         0.13         1.41 
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-62-A46O TCGA-62-A470 TCGA-64-1677 
        1.58         0.92         0.16        47.77        39.22        20.65 
TCGA-64-1678 TCGA-64-5774 TCGA-64-5779 TCGA-67-3771 TCGA-69-7760 TCGA-69-7973 
       39.09        83.84        16.67        20.02         5.06         7.56 
TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 TCGA-69-8255 TCGA-73-4659 
        6.05         2.30         2.93        12.56         4.21        23.38 
TCGA-73-4662 TCGA-73-7499 TCGA-78-7146 TCGA-78-7147 TCGA-78-7150 TCGA-78-7155 
       29.95        17.06         5.65        19.27        21.86        38.50 
TCGA-78-7158 TCGA-78-7159 TCGA-78-7161 TCGA-78-7220 TCGA-78-7536 TCGA-78-7539 
        5.88        40.11         7.04        26.53         8.02        10.75 
TCGA-78-7542 TCGA-83-5908 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 
       10.55        13.81         0.36         0.89         0.23         1.12 
TCGA-86-7955 TCGA-86-8054 TCGA-86-8279 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 
        0.46         0.62         0.69         0.62         0.85         1.12 
TCGA-86-8669 TCGA-86-A456 TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6830 TCGA-91-6831 
        1.08         0.33         0.99         1.22         0.03         1.28 
TCGA-91-6836 TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 TCGA-97-7547 
        0.36         6.08         1.12         0.07         0.69        47.18 
TCGA-97-8171 TCGA-97-8172 TCGA-99-8025 TCGA-99-8033 TCGA-J2-8194 TCGA-J2-A4AD 
        3.48         5.95        14.04         5.56         3.72         9.44 
TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N4 
        6.97         0.20        20.42 

$subtype3
TCGA-05-4249 TCGA-05-4405 TCGA-05-4417 TCGA-05-4425 TCGA-05-4427 TCGA-38-4627 
       38.07        20.05        14.93        21.99        26.01        37.71 
TCGA-38-4629 TCGA-38-4631 TCGA-38-6178 TCGA-44-2665 TCGA-44-2668 TCGA-44-6144 
       28.37        11.64         5.19        13.15         8.09         0.30 
TCGA-44-6147 TCGA-44-6774 TCGA-44-6775 TCGA-44-6778 TCGA-44-6779 TCGA-44-7662 
        7.76         5.42         2.70        36.49        16.41         1.64 
TCGA-44-7667 TCGA-44-7669 TCGA-44-A479 TCGA-44-A4SU TCGA-49-4512 TCGA-49-6742 
       18.31        18.87         8.38         2.50        29.75        15.02 
TCGA-49-6761 TCGA-50-5044 TCGA-50-5072 TCGA-50-5933 TCGA-50-5939 TCGA-50-6591 
        0.03        20.48         8.05        77.88        15.12         3.88 
TCGA-50-6593 TCGA-50-6594 TCGA-50-6595 TCGA-50-7109 TCGA-55-6543 TCGA-55-6642 
       11.05        12.16         6.21         8.38         0.07        32.61 
TCGA-55-6971 TCGA-55-6978 TCGA-55-6980 TCGA-55-6982 TCGA-55-6983 TCGA-55-6985 
        0.92         5.46         2.20        32.71        60.03        40.54 
TCGA-55-7574 TCGA-55-7726 TCGA-55-7816 TCGA-55-8299 TCGA-55-A48Y TCGA-55-A4DG 
        3.12         1.02         1.02         7.07         1.02         5.29 
TCGA-62-A46P TCGA-64-1676 TCGA-64-1679 TCGA-64-5775 TCGA-64-5781 TCGA-67-3772 
       19.53        56.81        55.40         0.10        39.52        18.84 
TCGA-71-6725 TCGA-73-4658 TCGA-73-4675 TCGA-78-7163 TCGA-78-7535 TCGA-86-8055 
        2.01        52.57         1.32       223.96        31.20         0.33 
TCGA-86-8073 TCGA-86-8074 TCGA-86-8075 TCGA-86-8671 TCGA-86-8672 TCGA-91-6829 
        0.43         0.79         1.41         0.56         0.49        41.33 
TCGA-91-6847 TCGA-91-6848 TCGA-93-7348 TCGA-97-7554 TCGA-97-7937 TCGA-97-8177 
       26.93         4.18         4.18         8.65         5.95         4.80 
TCGA-99-8032 TCGA-J2-8192 TCGA-L9-A443 
        1.45         5.03         3.81 

subtype1 subtype2 subtype3 
    0.03     0.03     0.03 
subtype1 subtype2 subtype3 
  163.10    97.74   223.96 
subtype1 subtype2 subtype3 
    8.27     8.78     8.09 
[1] "0.0 - 163.1 (8.3)" "0.0 - 97.7 (8.8)"  "0.0 - 224.0 (8.1)"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [85] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[205] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[217] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[223] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[253] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[295] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[307] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[313] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[331] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[343] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[349] "subtype2" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [85] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[205] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[217] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[223] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[253] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[295] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[307] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[313] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[331] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[343] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[349] "subtype2" "subtype2"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [85] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[205] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[217] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[223] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[253] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[295] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[307] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[313] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[331] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[343] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[349] "subtype2" "subtype2"
D9V2, continuous
D9V3, binary
          cls
clus        0  1
  subtype1 77 63
  subtype2 86 79
  subtype3 46 35
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   77   63
  subtype2   86   79
  subtype3   46   35
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       77       86       46
  MALE         63       79       35
D9V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
      11       14        2 
 [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[25] "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                29
  subtype2                          6                                40
  subtype3                          0                                 9
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 78
  subtype2                                                104
  subtype3                                                 60
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          3
  subtype2                                          0
  subtype3                                          1
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             4
  subtype3                                             3
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              2                                  0
  subtype3                              0                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             8
  subtype2                            0                             5
  subtype3                            0                             5
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            4
  subtype2                            1
  subtype3                            2
D9V5, multiclass
D9V6, binary
          cls
clus         0   1
  subtype1   7 133
  subtype2   8 157
  subtype3   2  79
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  133
  subtype2    8  157
  subtype3    2   79
     clus
vv    subtype1 subtype2 subtype3
  NO         7        8        2
  YES      133      157       79
D9V7, continuous
D9V8, continuous
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  92   6   0   1  39
  subtype2 117   7   1   2  37
  subtype3  50   2   0   0  28
D9V9, multiclass
          vv
clus        N0  N1  N2  N3  NX
  subtype1  87  30  18   0   3
  subtype2 107  26  27   2   3
  subtype3  51  15  13   0   2
D9V10, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1  86   1   2   5
  subtype2 110   5   2   5
  subtype3  43   3   0   4
D9V11, multiclass
D9V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       48       31        12        20         18          1
  subtype2       2       34       54        13        20         26          7
  subtype3       1       14       28         7        11         14          3
          vv
clus       STAGE IV
  subtype1        8
  subtype2        9
  subtype3        3
D9V13, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  94  26
  subtype2 144  45
  subtype3  27  14
subtype1 subtype2 subtype3 
     120      189       41 
subtype1 subtype2 subtype3 
      26       45       14 
$subtype1
TCGA-05-4250 TCGA-05-4384 TCGA-05-4403 TCGA-05-4426 TCGA-05-4433 TCGA-05-5429 
        3.98        14.01        19.00        26.01        24.00         0.99 
TCGA-35-3615 TCGA-35-4122 TCGA-38-7271 TCGA-38-A44F TCGA-44-2657 TCGA-44-2661 
        0.46         7.36        26.30         4.37        13.15         3.39 
TCGA-44-2666 TCGA-44-3398 TCGA-44-3919 TCGA-44-4112 TCGA-44-5645 TCGA-44-6145 
        3.19         8.32         6.21         4.60         6.84         3.35 
TCGA-44-6146 TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-6777 TCGA-44-6779 
        9.93         7.76         3.12        63.72        32.45        16.41 
TCGA-44-7659 TCGA-44-7671 TCGA-44-7672 TCGA-44-A47F TCGA-44-A47G TCGA-49-4487 
        9.80        17.59        13.74         8.09         4.44        28.11 
TCGA-49-4505 TCGA-49-4510 TCGA-49-6744 TCGA-49-6745 TCGA-50-5055 TCGA-50-5068 
       14.07        29.46        12.99         4.93        25.81        49.28 
TCGA-50-5932 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 
       35.87         8.45        15.12         9.37         4.44        12.26 
TCGA-50-6593 TCGA-50-6597 TCGA-53-7626 TCGA-55-1595 TCGA-55-6712 TCGA-55-6970 
       11.05        33.37        30.54        48.62         0.79        15.25 
TCGA-55-6972 TCGA-55-6980 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 TCGA-55-6986 
       48.49         2.20        60.03        24.99        40.54        71.05 
TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 TCGA-55-7576 
        2.01         0.59         1.12         0.13         3.12         1.32 
TCGA-55-7725 TCGA-55-7727 TCGA-55-7728 TCGA-55-7816 TCGA-55-7911 TCGA-55-7914 
        1.28         1.02         0.79         1.02         0.69         0.10 
TCGA-55-8090 TCGA-55-8512 TCGA-55-8513 TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X 
        0.20         0.10         4.80         1.61         3.45         1.08 
TCGA-55-A492 TCGA-62-A472 TCGA-64-1680 TCGA-64-1681 TCGA-64-5778 TCGA-64-5815 
        0.03        17.75        37.02        44.38        30.44         7.33 
TCGA-67-3770 TCGA-67-3774 TCGA-67-6215 TCGA-67-6217 TCGA-69-7763 TCGA-69-7765 
        0.99        12.66         5.29        13.87        22.68         4.24 
TCGA-69-8253 TCGA-69-8254 TCGA-73-4675 TCGA-73-4676 TCGA-73-7498 TCGA-78-7147 
        3.25         2.50         1.32         4.01        20.42        19.27 
TCGA-78-7148 TCGA-78-7149 TCGA-78-7152 TCGA-78-7154 TCGA-78-7156 TCGA-78-7160 
       20.58        35.93        39.48        19.50        32.09        22.29 
TCGA-78-7162 TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-86-8076 
      104.15        88.11        53.33        28.96        32.68         0.85 
TCGA-86-8280 TCGA-86-A4P8 TCGA-91-6849 TCGA-93-7347 TCGA-95-7567 TCGA-95-7947 
        0.53         1.28         1.15         9.76         5.36         1.32 
TCGA-97-7546 TCGA-97-7552 TCGA-97-7553 TCGA-97-7938 TCGA-97-7941 TCGA-97-8174 
       31.66        48.53        43.76         0.59         0.72         5.36 
TCGA-97-8179 TCGA-99-7458 TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
        0.49         8.22        15.06         9.27         7.82         2.50 

$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-05-4434 
       30.02        21.99        26.01        25.02        25.02        15.02 
TCGA-05-5420 TCGA-05-5423 TCGA-05-5425 TCGA-05-5715 TCGA-35-4123 TCGA-35-5375 
        1.02         4.96         2.96         2.04         5.95         8.68 
TCGA-38-4625 TCGA-38-4628 TCGA-38-4630 TCGA-38-4631 TCGA-38-4632 TCGA-44-2656 
       97.74        49.02        35.28        11.64        44.61        19.10 
TCGA-44-2659 TCGA-44-2662 TCGA-44-2668 TCGA-44-3396 TCGA-44-3918 TCGA-44-5643 
       17.39        15.78         8.09        10.22         6.44         3.48 
TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 TCGA-44-7660 TCGA-44-7662 TCGA-44-7667 
       16.37         0.30        36.49         5.33         1.64        18.31 
TCGA-44-7669 TCGA-44-7670 TCGA-44-8117 TCGA-44-8119 TCGA-44-A479 TCGA-44-A47A 
       18.87        17.46         8.52         3.22         8.38         6.64 
TCGA-44-A4SS TCGA-49-4486 TCGA-49-4488 TCGA-49-4490 TCGA-49-4494 TCGA-49-4501 
        3.75        76.21        28.57        12.66        35.54        46.72 
TCGA-49-4506 TCGA-49-4507 TCGA-49-4514 TCGA-49-6742 TCGA-49-6743 TCGA-49-6761 
       32.84         8.81        43.20        15.02        12.13         0.03 
TCGA-50-5049 TCGA-50-5051 TCGA-50-5066 TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 
       48.82        14.96         9.76         8.05         9.27         8.78 
TCGA-50-5935 TCGA-50-5946 TCGA-50-6590 TCGA-50-6592 TCGA-50-6594 TCGA-50-6673 
       21.47        11.47        42.31        25.51        12.16         0.72 
TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-55-1592 TCGA-55-1594 TCGA-55-1596 
        8.38        34.26        13.74        23.05        38.73        45.17 
TCGA-55-5899 TCGA-55-6642 TCGA-55-6968 TCGA-55-6969 TCGA-55-6971 TCGA-55-6978 
        2.86        32.61        42.48        40.70         0.92         5.46 
TCGA-55-6979 TCGA-55-6981 TCGA-55-6982 TCGA-55-6987 TCGA-55-7815 TCGA-55-7907 
        7.76        45.34        32.71        38.47         1.78         0.53 
TCGA-55-7910 TCGA-55-8087 TCGA-55-8089 TCGA-55-8092 TCGA-55-8094 TCGA-55-8097 
        6.48         0.69         3.02         0.85         0.13         0.49 
TCGA-55-8301 TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 TCGA-55-8615 TCGA-55-8616 
        1.41         7.46         0.30         6.97         0.49         1.58 
TCGA-55-8620 TCGA-55-A48Z TCGA-55-A490 TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DG 
        2.14         0.95         1.58         0.92         0.16         5.29 
TCGA-62-8399 TCGA-62-A46O TCGA-62-A470 TCGA-64-1676 TCGA-64-1677 TCGA-64-1678 
       68.81        47.77        39.22        56.81        20.65        39.09 
TCGA-64-1679 TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 TCGA-64-5781 TCGA-67-3771 
       55.40        83.84         0.10        16.67        39.52        20.02 
TCGA-67-3772 TCGA-67-3773 TCGA-69-7760 TCGA-69-7761 TCGA-69-7764 TCGA-69-7973 
       18.84        14.04         5.06         6.12        13.61         7.56 
TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 TCGA-69-8255 TCGA-73-4659 
        6.05         2.30         2.93        12.56         4.21        23.38 
TCGA-73-4662 TCGA-73-7499 TCGA-78-7146 TCGA-78-7150 TCGA-78-7153 TCGA-78-7155 
       29.95        17.06         5.65        21.86        24.99        38.50 
TCGA-78-7158 TCGA-78-7159 TCGA-78-7161 TCGA-78-7220 TCGA-78-7536 TCGA-78-7539 
        5.88        40.11         7.04        26.53         8.02        10.75 
TCGA-78-7542 TCGA-83-5908 TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 
       10.55        13.81         0.36         0.89         0.23         1.12 
TCGA-86-7955 TCGA-86-8054 TCGA-86-8055 TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 
        0.46         0.62         0.33         0.43         1.41         0.69 
TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 
        0.62         0.85         1.12         1.08         0.56         0.49 
TCGA-86-A456 TCGA-86-A4D0 TCGA-91-6828 TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 
        0.33         0.99         1.22        41.33         0.03         1.28 
TCGA-91-6835 TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 TCGA-91-7771 TCGA-93-8067 
        1.15         0.36        26.93         4.18         1.02         6.08 
TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 TCGA-95-7948 TCGA-97-7547 TCGA-97-8171 
        1.12         0.07         0.69         4.34        47.18         3.48 
TCGA-97-8172 TCGA-99-8025 TCGA-99-8032 TCGA-99-8033 TCGA-J2-8194 TCGA-J2-A4AD 
        5.95        14.04         1.45         5.56         3.72         9.44 
TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N4 
        6.97         0.20        20.42 

$subtype3
TCGA-05-4249 TCGA-05-4405 TCGA-38-4626 TCGA-38-4627 TCGA-38-4629 TCGA-38-6178 
       38.07        20.05       120.79        37.71        28.37         5.19 
TCGA-44-2655 TCGA-44-2665 TCGA-44-6774 TCGA-44-6775 TCGA-44-7661 TCGA-44-A4SU 
       18.87        13.15         5.42         2.70         5.03         2.50 
TCGA-49-4512 TCGA-50-5044 TCGA-50-5045 TCGA-50-5933 TCGA-50-6591 TCGA-50-6595 
       29.75        20.48        71.47        77.88         3.88         6.21 
TCGA-55-6543 TCGA-55-7726 TCGA-55-7903 TCGA-55-8299 TCGA-55-A48Y TCGA-62-A46P 
        0.07         1.02         0.62         7.07         1.02        19.53 
TCGA-67-6216 TCGA-71-6725 TCGA-73-4658 TCGA-78-7143 TCGA-78-7145 TCGA-78-7163 
        4.60         2.01        52.57       163.10        27.16       223.96 
TCGA-78-7166 TCGA-78-7535 TCGA-86-8074 TCGA-86-8278 TCGA-86-8668 TCGA-93-7348 
        8.48        31.20         0.79         0.76         1.45         4.18 
TCGA-97-7554 TCGA-97-7937 TCGA-97-8177 TCGA-J2-8192 TCGA-L9-A443 
        8.65         5.95         4.80         5.03         3.81 

subtype1 subtype2 subtype3 
    0.03     0.03     0.07 
subtype1 subtype2 subtype3 
  104.15    97.74   223.96 
subtype1 subtype2 subtype3 
   8.385    8.520    6.210 
[1] "0.0 - 104.2 (8.4)" "0.0 - 97.7 (8.5)"  "0.1 - 224.0 (6.2)"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [73] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[145] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[175] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[217] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[223] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[253] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[313] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[325] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[331] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[343] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[349] "subtype2" "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" "subtype1"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [73] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[145] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[175] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[217] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[223] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[253] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[313] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[325] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[331] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[343] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[349] "subtype2" "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" "subtype1"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [73] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[145] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[157] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[175] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[193] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[199] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[217] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[223] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[229] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[253] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[259] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[271] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[277] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[313] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[325] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[331] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[337] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[343] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[349] "subtype2" "subtype2"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1  71  62
  subtype2 104 104
  subtype3  34  11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   71   62
  subtype2  104  104
  subtype3   34   11
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       71      104       34
  MALE         62      104       11
D10V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
      11       14        2 
 [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [7] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[25] "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          4                                30
  subtype2                          7                                45
  subtype3                          0                                 3
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 72
  subtype2                                                138
  subtype3                                                 32
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             6
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              1                                  0
  subtype2                              1                                  0
  subtype3                              0                                  2
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             7
  subtype2                            0                             7
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            5
  subtype2                            1
  subtype3                            1
D10V5, multiclass
D10V6, binary
          cls
clus         0   1
  subtype1   6 127
  subtype2   9 199
  subtype3   2  43
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  127
  subtype2    9  199
  subtype3    2   43
     clus
vv    subtype1 subtype2 subtype3
  NO         6        9        2
  YES      127      199       43
D10V7, continuous
D10V8, continuous
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  87   5   0   1  38
  subtype2 141   8   1   2  55
  subtype3  31   2   0   0  11
D10V9, multiclass
          vv
clus        N0  N1  N2  N3  NX
  subtype1  82  27  17   0   5
  subtype2 137  32  34   2   3
  subtype3  26  12   7   0   0
D10V10, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1  77   1   2   6
  subtype2 134   6   2   6
  subtype3  28   2   0   2
D10V11, multiclass
D10V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       43       31         9        20         19          1
  subtype2       3       41       71        16        26         33          8
  subtype3       0       12       11         7         5          6          2
          vv
clus       STAGE IV
  subtype1        8
  subtype2       10
  subtype3        2
D10V13, multiclass

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2       0  1
  subtype1 91 27
  subtype2 92 27
  subtype3 41 11
subtype1 subtype2 subtype3 
     118      119       52 
subtype1 subtype2 subtype3 
      27       27       11 
$subtype1
TCGA-05-4384 TCGA-05-4396 TCGA-05-4405 TCGA-05-4424 TCGA-05-4433 TCGA-05-5423 
       14.01         9.96        20.05        30.02        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         6.84         3.35         9.93 
TCGA-44-6147 TCGA-44-6148 TCGA-44-6776 TCGA-44-6777 TCGA-44-7659 TCGA-44-7661 
        7.76         3.12        63.72        32.45         9.80         5.03 
TCGA-44-7671 TCGA-44-7672 TCGA-44-A47F TCGA-44-A47G TCGA-49-4487 TCGA-49-4490 
       17.59        13.74         8.09         4.44        28.11        12.66 
TCGA-49-4514 TCGA-49-6744 TCGA-49-6745 TCGA-50-5044 TCGA-50-5045 TCGA-50-5051 
       43.20        12.99         4.93        20.48        71.47        14.96 
TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5936 TCGA-50-5939 TCGA-50-5941 
       25.81        49.28        35.87         8.45        15.12         9.37 
TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 TCGA-50-7109 TCGA-53-7626 
        4.44        12.26        11.05        33.37         8.38        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-55-7576 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-55-8097 TCGA-55-8510 TCGA-55-8512 TCGA-55-8513 
        0.69         0.10         0.49         7.46         0.10         4.80 
TCGA-55-8616 TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X TCGA-55-A492 TCGA-55-A4DG 
        1.58         1.61         3.45         1.08         0.03         5.29 
TCGA-62-A472 TCGA-64-1681 TCGA-64-5778 TCGA-64-5815 TCGA-67-6215 TCGA-67-6217 
       17.75        44.38        30.44         7.33         5.29        13.87 
TCGA-69-7761 TCGA-69-7763 TCGA-69-7764 TCGA-69-8253 TCGA-69-8254 TCGA-73-4676 
        6.12        22.68        13.61         3.25         2.50         4.01 
TCGA-73-7498 TCGA-78-7143 TCGA-78-7145 TCGA-78-7147 TCGA-78-7148 TCGA-78-7149 
       20.42       163.10        27.16        19.27        20.58        35.93 
TCGA-78-7152 TCGA-78-7153 TCGA-78-7154 TCGA-78-7156 TCGA-78-7158 TCGA-78-7160 
       39.48        24.99        19.50        32.09         5.88        22.29 
TCGA-78-7162 TCGA-78-7167 TCGA-78-7537 TCGA-78-7540 TCGA-78-7542 TCGA-78-7633 
      104.15        88.11        53.33        28.96        10.55        32.68 
TCGA-86-8076 TCGA-86-A456 TCGA-86-A4P8 TCGA-91-6828 TCGA-91-6835 TCGA-91-6849 
        0.85         0.33         1.28         1.22         1.15         1.15 
TCGA-91-7771 TCGA-93-7347 TCGA-95-7567 TCGA-95-7948 TCGA-97-7546 TCGA-97-7547 
        1.02         9.76         5.36         4.34        31.66        47.18 
TCGA-97-7552 TCGA-97-7553 TCGA-97-7937 TCGA-97-7938 TCGA-97-8179 TCGA-99-7458 
       48.53        43.76         5.95         0.59         0.49         8.22 
TCGA-99-8028 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
       15.06         9.27         7.82         2.50 

$subtype2
TCGA-05-4390 TCGA-05-4415 TCGA-05-4425 TCGA-05-5420 TCGA-05-5425 TCGA-05-5715 
       37.02         2.96        21.99         1.02         2.96         2.04 
TCGA-35-5375 TCGA-38-4632 TCGA-44-5643 TCGA-44-5644 TCGA-44-7660 TCGA-44-7670 
        8.68        44.61         3.48        16.37         5.33        17.46 
TCGA-44-8117 TCGA-44-8119 TCGA-44-A479 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4488 
        8.52         3.22         8.38         6.64         3.75        28.57 
TCGA-50-5049 TCGA-50-5066 TCGA-50-5930 TCGA-50-5931 TCGA-50-5935 TCGA-50-5946 
       48.82         9.76         9.27         8.78        21.47        11.47 
TCGA-50-6590 TCGA-50-6592 TCGA-50-6594 TCGA-50-6673 TCGA-53-7624 TCGA-53-7813 
       42.31        25.51        12.16         0.72        34.26        13.74 
TCGA-55-5899 TCGA-55-6968 TCGA-55-6969 TCGA-55-6970 TCGA-55-6971 TCGA-55-6979 
        2.86        42.48        40.70        15.25         0.92         7.76 
TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6987 TCGA-55-7728 TCGA-55-7907 
        2.20        45.34        32.71        38.47         0.79         0.53 
TCGA-55-7910 TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8092 TCGA-55-8094 
        6.48         0.69         3.02         0.20         0.85         0.13 
TCGA-55-8301 TCGA-55-8511 TCGA-55-8514 TCGA-55-8615 TCGA-55-8620 TCGA-55-A48Y 
        1.41         0.30         6.97         0.49         2.14         1.02 
TCGA-55-A48Z TCGA-55-A490 TCGA-55-A493 TCGA-55-A494 TCGA-62-8399 TCGA-62-A46O 
        0.95         1.58         0.92         0.16        68.81        47.77 
TCGA-62-A46P TCGA-62-A470 TCGA-64-5774 TCGA-64-5775 TCGA-64-5779 TCGA-69-7973 
       19.53        39.22        83.84         0.10        16.67         7.56 
TCGA-69-7974 TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 TCGA-69-8255 TCGA-73-7499 
        6.05         2.30         2.93        12.56         4.21        17.06 
TCGA-78-7146 TCGA-78-7150 TCGA-78-7155 TCGA-78-7159 TCGA-78-7161 TCGA-78-7166 
        5.65        21.86        38.50        40.11         7.04         8.48 
TCGA-78-7535 TCGA-78-7536 TCGA-78-7539 TCGA-83-5908 TCGA-86-7711 TCGA-86-7713 
       31.20         8.02        10.75        13.81         0.89         0.23 
TCGA-86-7953 TCGA-86-7955 TCGA-86-8054 TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 
        1.12         0.46         0.62         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-A4D0 TCGA-91-6830 TCGA-91-6831 TCGA-91-6836 TCGA-91-6847 
        0.49         0.99         0.03         1.28         0.36        26.93 
TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 TCGA-95-7947 TCGA-97-7941 
        6.08         1.12         0.07         0.69         1.32         0.72 
TCGA-97-8171 TCGA-97-8172 TCGA-97-8174 TCGA-99-8025 TCGA-99-8032 TCGA-99-8033 
        3.48         5.95         5.36        14.04         1.45         5.56 
TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N4 
        3.72         9.44         6.97         0.20        20.42 

$subtype3
TCGA-05-4417 TCGA-05-4427 TCGA-38-4631 TCGA-38-6178 TCGA-44-6144 TCGA-44-6774 
       14.93        26.01        11.64         5.19         0.30         5.42 
TCGA-44-6775 TCGA-44-6778 TCGA-44-6779 TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 
        2.70        36.49        16.41         1.64        18.31        18.87 
TCGA-44-A4SU TCGA-49-4512 TCGA-49-6742 TCGA-49-6743 TCGA-49-6761 TCGA-50-5072 
        2.50        29.75        15.02        12.13         0.03         8.05 
TCGA-50-5933 TCGA-50-6591 TCGA-50-6595 TCGA-55-6543 TCGA-55-6642 TCGA-55-6978 
       77.88         3.88         6.21         0.07        32.61         5.46 
TCGA-55-6983 TCGA-55-6985 TCGA-55-7574 TCGA-55-7726 TCGA-55-7815 TCGA-55-7816 
       60.03        40.54         3.12         1.02         1.78         1.02 
TCGA-55-8299 TCGA-64-1679 TCGA-64-5781 TCGA-67-6216 TCGA-69-7760 TCGA-69-7765 
        7.07        55.40        39.52         4.60         5.06         4.24 
TCGA-71-6725 TCGA-73-4658 TCGA-78-7163 TCGA-78-7220 TCGA-86-7701 TCGA-86-8055 
        2.01        52.57       223.96        26.53         0.36         0.33 
TCGA-86-8074 TCGA-86-8278 TCGA-86-8668 TCGA-91-6829 TCGA-91-6848 TCGA-93-7348 
        0.79         0.76         1.45        41.33         4.18         4.18 
TCGA-97-7554 TCGA-97-8177 TCGA-J2-8192 TCGA-L9-A443 
        8.65         4.80         5.03         3.81 

subtype1 subtype2 subtype3 
    0.03     0.03     0.03 
subtype1 subtype2 subtype3 
  163.10    83.84   223.96 
subtype1 subtype2 subtype3 
   9.565    5.330    5.305 
[1] "0.0 - 163.1 (9.6)" "0.0 - 83.8 (5.3)"  "0.0 - 224.0 (5.3)"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [37] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [85] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[151] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[205] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[283] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [37] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [85] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[151] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[205] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[283] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [37] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [85] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [91] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[151] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[205] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[211] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[241] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[247] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[283] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype2"
D11V2, continuous
D11V3, binary
          cls
clus        0  1
  subtype1 70 58
  subtype2 67 70
  subtype3 38 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   70   58
  subtype2   67   70
  subtype3   38   20
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       70       67       38
  MALE         58       70       20
D11V4, continuous
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          4                                33
  subtype2                          6                                24
  subtype3                          1                                 6
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 66
  subtype2                                                 91
  subtype3                                                 39
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          0
  subtype3                                          2
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                             9
  subtype2                                             7
  subtype3                                             1
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              0                                  0
  subtype3                              1                                  1
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             8
  subtype2                            0                             5
  subtype3                            0                             4
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             3
  subtype3                                             0
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            3
  subtype2                            1
  subtype3                            3
D11V5, multiclass
D11V6, binary
          cls
clus         0   1
  subtype1   6 122
  subtype2   6 131
  subtype3   3  55
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  122
  subtype2    6  131
  subtype3    3   55
     clus
vv    subtype1 subtype2 subtype3
  NO         6        6        3
  YES      122      131       55
D11V7, continuous
D11V8, continuous
          vv
clus       M0 M1 M1A M1B MX
  subtype1 80  4   0   1 41
  subtype2 91  5   1   2 37
  subtype3 29  2   0   0 26
D11V9, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 81 26 17  0  2
  subtype2 95 19 19  1  3
  subtype3 32 12 13  0  1
D11V10, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 69  3  1  5
  subtype2 89  2  0  4
  subtype3 29  2  0  3
D11V11, multiclass
D11V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       1       40       32         8        18         18          4
  subtype2       2       30       47        15        14         19          3
  subtype3       0       11       14         6         9         12          2
          vv
clus       STAGE IV
  subtype1        5
  subtype2        7
  subtype3        4
D11V13, multiclass

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2        0   1
  subtype1  87  25
  subtype2  18   9
  subtype3 119  31
subtype1 subtype2 subtype3 
     112       27      150 
subtype1 subtype2 subtype3 
      25        9       31 
$subtype1
TCGA-05-4384 TCGA-05-4405 TCGA-05-4433 TCGA-05-5429 TCGA-38-7271 TCGA-38-A44F 
       14.01        20.05        24.00         0.99        26.30         4.37 
TCGA-44-5645 TCGA-44-6145 TCGA-44-6146 TCGA-44-6147 TCGA-44-6148 TCGA-44-6775 
        6.84         3.35         9.93         7.76         3.12         2.70 
TCGA-44-6776 TCGA-44-6777 TCGA-44-6779 TCGA-44-7659 TCGA-44-7661 TCGA-44-7671 
       63.72        32.45        16.41         9.80         5.03        17.59 
TCGA-44-7672 TCGA-44-A47F TCGA-44-A47G TCGA-49-4512 TCGA-49-4514 TCGA-49-6744 
       13.74         8.09         4.44        29.75        43.20        12.99 
TCGA-49-6745 TCGA-50-5044 TCGA-50-5055 TCGA-50-5068 TCGA-50-5932 TCGA-50-5936 
        4.93        20.48        25.81        49.28        35.87         8.45 
TCGA-50-5941 TCGA-50-5942 TCGA-50-5944 TCGA-50-6593 TCGA-50-6597 TCGA-53-7626 
        9.37         4.44        12.26        11.05        33.37        30.54 
TCGA-55-6712 TCGA-55-6970 TCGA-55-6972 TCGA-55-6983 TCGA-55-6984 TCGA-55-6985 
        0.79        15.25        48.49        60.03        24.99        40.54 
TCGA-55-6986 TCGA-55-7227 TCGA-55-7281 TCGA-55-7283 TCGA-55-7573 TCGA-55-7574 
       71.05         2.01         0.59         1.12         0.13         3.12 
TCGA-55-7576 TCGA-55-7725 TCGA-55-7727 TCGA-55-7728 TCGA-55-7816 TCGA-55-7903 
        1.32         1.28         1.02         0.79         1.02         0.62 
TCGA-55-7907 TCGA-55-7911 TCGA-55-7914 TCGA-55-8512 TCGA-55-8513 TCGA-55-8616 
        0.53         0.69         0.10         0.10         4.80         1.58 
TCGA-55-8619 TCGA-55-8621 TCGA-55-A48X TCGA-55-A492 TCGA-62-A472 TCGA-64-1681 
        1.61         3.45         1.08         0.03        17.75        44.38 
TCGA-64-5778 TCGA-64-5815 TCGA-67-6215 TCGA-67-6217 TCGA-69-7761 TCGA-69-7763 
       30.44         7.33         5.29        13.87         6.12        22.68 
TCGA-69-7765 TCGA-69-8253 TCGA-69-8254 TCGA-71-6725 TCGA-73-4676 TCGA-73-7498 
        4.24         3.25         2.50         2.01         4.01        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-78-7535 
       19.50        32.09        22.29       104.15         8.48        31.20 
TCGA-78-7537 TCGA-78-7540 TCGA-78-7633 TCGA-86-8076 TCGA-86-8280 TCGA-86-A4P8 
       53.33        28.96        32.68         0.85         0.53         1.28 
TCGA-91-6835 TCGA-93-7347 TCGA-95-7567 TCGA-95-7947 TCGA-97-7546 TCGA-97-7552 
        1.15         9.76         5.36         1.32        31.66        48.53 
TCGA-97-7553 TCGA-97-7937 TCGA-97-7938 TCGA-97-7941 TCGA-97-8174 TCGA-97-8179 
       43.76         5.95         0.59         0.72         5.36         0.49 
TCGA-99-7458 TCGA-J2-A4AE TCGA-J2-A4AG TCGA-L4-A4E6 
        8.22         9.27         7.82         2.50 

$subtype2
TCGA-38-4632 TCGA-38-6178 TCGA-44-6774 TCGA-44-A4SU TCGA-50-5045 TCGA-50-5933 
       44.61         5.19         5.42         2.50        71.47        77.88 
TCGA-50-6591 TCGA-50-6592 TCGA-50-6594 TCGA-50-6595 TCGA-55-6543 TCGA-55-7726 
        3.88        25.51        12.16         6.21         0.07         1.02 
TCGA-55-A48Y TCGA-62-A46P TCGA-67-6216 TCGA-73-4658 TCGA-78-7163 TCGA-86-8054 
        1.02        19.53         4.60        52.57       223.96         0.62 
TCGA-86-8074 TCGA-86-8278 TCGA-86-8668 TCGA-93-7348 TCGA-95-7948 TCGA-97-7554 
        0.79         0.76         1.45         4.18         4.34         8.65 
TCGA-97-8177 TCGA-J2-8192 TCGA-L9-A443 
        4.80         5.03         3.81 

$subtype3
TCGA-05-4390 TCGA-05-4396 TCGA-05-4415 TCGA-05-4417 TCGA-05-4424 TCGA-05-4425 
       37.02         9.96         2.96        14.93        30.02        21.99 
TCGA-05-4427 TCGA-05-5420 TCGA-05-5423 TCGA-05-5425 TCGA-05-5715 TCGA-35-5375 
       26.01         1.02         4.96         2.96         2.04         8.68 
TCGA-38-4631 TCGA-44-5643 TCGA-44-5644 TCGA-44-6144 TCGA-44-6778 TCGA-44-7660 
       11.64         3.48        16.37         0.30        36.49         5.33 
TCGA-44-7662 TCGA-44-7667 TCGA-44-7669 TCGA-44-7670 TCGA-44-8117 TCGA-44-8119 
        1.64        18.31        18.87        17.46         8.52         3.22 
TCGA-44-A479 TCGA-44-A47A TCGA-44-A4SS TCGA-49-4487 TCGA-49-4488 TCGA-49-4490 
        8.38         6.64         3.75        28.11        28.57        12.66 
TCGA-49-6742 TCGA-49-6743 TCGA-49-6761 TCGA-50-5049 TCGA-50-5051 TCGA-50-5066 
       15.02        12.13         0.03        48.82        14.96         9.76 
TCGA-50-5072 TCGA-50-5930 TCGA-50-5931 TCGA-50-5935 TCGA-50-5939 TCGA-50-5946 
        8.05         9.27         8.78        21.47        15.12        11.47 
TCGA-50-6590 TCGA-50-6673 TCGA-50-7109 TCGA-53-7624 TCGA-53-7813 TCGA-55-5899 
       42.31         0.72         8.38        34.26        13.74         2.86 
TCGA-55-6642 TCGA-55-6968 TCGA-55-6969 TCGA-55-6971 TCGA-55-6978 TCGA-55-6979 
       32.61        42.48        40.70         0.92         5.46         7.76 
TCGA-55-6980 TCGA-55-6981 TCGA-55-6982 TCGA-55-6987 TCGA-55-7815 TCGA-55-7910 
        2.20        45.34        32.71        38.47         1.78         6.48 
TCGA-55-8087 TCGA-55-8089 TCGA-55-8090 TCGA-55-8092 TCGA-55-8094 TCGA-55-8097 
        0.69         3.02         0.20         0.85         0.13         0.49 
TCGA-55-8299 TCGA-55-8301 TCGA-55-8510 TCGA-55-8511 TCGA-55-8514 TCGA-55-8615 
        7.07         1.41         7.46         0.30         6.97         0.49 
TCGA-55-8620 TCGA-55-A48Z TCGA-55-A490 TCGA-55-A493 TCGA-55-A494 TCGA-55-A4DG 
        2.14         0.95         1.58         0.92         0.16         5.29 
TCGA-62-8399 TCGA-62-A46O TCGA-62-A470 TCGA-64-1679 TCGA-64-5774 TCGA-64-5775 
       68.81        47.77        39.22        55.40        83.84         0.10 
TCGA-64-5779 TCGA-64-5781 TCGA-69-7760 TCGA-69-7764 TCGA-69-7973 TCGA-69-7974 
       16.67        39.52         5.06        13.61         7.56         6.05 
TCGA-69-7978 TCGA-69-7979 TCGA-69-7980 TCGA-69-8255 TCGA-73-7499 TCGA-78-7146 
        2.30         2.93        12.56         4.21        17.06         5.65 
TCGA-78-7150 TCGA-78-7153 TCGA-78-7155 TCGA-78-7158 TCGA-78-7159 TCGA-78-7161 
       21.86        24.99        38.50         5.88        40.11         7.04 
TCGA-78-7167 TCGA-78-7220 TCGA-78-7536 TCGA-78-7539 TCGA-78-7542 TCGA-83-5908 
       88.11        26.53         8.02        10.75        10.55        13.81 
TCGA-86-7701 TCGA-86-7711 TCGA-86-7713 TCGA-86-7953 TCGA-86-7955 TCGA-86-8055 
        0.36         0.89         0.23         1.12         0.46         0.33 
TCGA-86-8073 TCGA-86-8075 TCGA-86-8279 TCGA-86-8358 TCGA-86-8359 TCGA-86-8585 
        0.43         1.41         0.69         0.62         0.85         1.12 
TCGA-86-8669 TCGA-86-8671 TCGA-86-8672 TCGA-86-A456 TCGA-86-A4D0 TCGA-91-6828 
        1.08         0.56         0.49         0.33         0.99         1.22 
TCGA-91-6829 TCGA-91-6830 TCGA-91-6831 TCGA-91-6836 TCGA-91-6847 TCGA-91-6848 
       41.33         0.03         1.28         0.36        26.93         4.18 
TCGA-91-6849 TCGA-91-7771 TCGA-93-8067 TCGA-95-7039 TCGA-95-7043 TCGA-95-7944 
        1.15         1.02         6.08         1.12         0.07         0.69 
TCGA-97-7547 TCGA-97-8171 TCGA-97-8172 TCGA-99-8025 TCGA-99-8028 TCGA-99-8032 
       47.18         3.48         5.95        14.04        15.06         1.45 
TCGA-99-8033 TCGA-J2-8194 TCGA-J2-A4AD TCGA-L4-A4E5 TCGA-L9-A444 TCGA-MN-A4N4 
        5.56         3.72         9.44         6.97         0.20        20.42 

subtype1 subtype2 subtype3 
    0.03     0.07     0.03 
subtype1 subtype2 subtype3 
  163.10   223.96    88.11 
subtype1 subtype2 subtype3 
   8.335    4.800    6.280 
[1] "0.0 - 163.1 (8.3)" "0.1 - 224.0 (4.8)" "0.0 - 88.1 (6.3)" 
  [1] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [19] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [85] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [97] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[145] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[211] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[217] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[229] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[253] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[259] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[271] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[289] "subtype3"
  [1] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [19] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [85] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [97] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[145] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[211] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[217] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[229] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[253] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[259] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[271] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[289] "subtype3"
  [1] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [19] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [73] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
 [85] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [97] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[121] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[145] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[175] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[205] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[211] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[217] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[229] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[235] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[253] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[259] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[271] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[289] "subtype3"
D12V2, continuous
D12V3, binary
          cls
clus        0  1
  subtype1 68 56
  subtype2 25  8
  subtype3 82 84
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   68   56
  subtype2   25    8
  subtype3   82   84
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       68       25       82
  MALE         56        8       84
D12V4, continuous
[1] "Remove cluster labels:" "subtype2"              
clus
subtype1 subtype2 subtype3 
      10        1       11 
 [1] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [7] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[19] "subtype3" "subtype3" "subtype1"
          vv
clus       LUNG ACINAR ADENOCARCINOMA LUNG ADENOCARCINOMA MIXED SUBTYPE
  subtype1                          5                                27
  subtype2                          1                                 3
  subtype3                          5                                33
          vv
clus       LUNG ADENOCARCINOMA- NOT OTHERWISE SPECIFIED (NOS)
  subtype1                                                 64
  subtype2                                                 22
  subtype3                                                110
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA MUCINOUS
  subtype1                                          2
  subtype2                                          2
  subtype3                                          0
          vv
clus       LUNG BRONCHIOLOALVEOLAR CARCINOMA NONMUCINOUS
  subtype1                                            10
  subtype2                                             0
  subtype3                                             7
          vv
clus       LUNG CLEAR CELL ADENOCARCINOMA LUNG MICROPAPILLARY ADENOCARCINOMA
  subtype1                              0                                  1
  subtype2                              0                                  1
  subtype3                              1                                  0
          vv
clus       LUNG MUCINOUS ADENOCARCINOMA LUNG PAPILLARY ADENOCARCINOMA
  subtype1                            2                             8
  subtype2                            0                             3
  subtype3                            0                             6
          vv
clus       LUNG SOLID PATTERN PREDOMINANT ADENOCARCINOMA
  subtype1                                             0
  subtype2                                             0
  subtype3                                             3
          vv
clus       MUCINOUS (COLLOID) CARCINOMA
  subtype1                            5
  subtype2                            1
  subtype3                            1
D12V5, multiclass
D12V6, binary
          cls
clus         0   1
  subtype1   6 118
  subtype2   1  32
  subtype3   8 158
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  118
  subtype2    1   32
  subtype3    8  158
     clus
vv    subtype1 subtype2 subtype3
  NO         6        1        8
  YES      118       32      158
D12V7, continuous
D12V8, continuous
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  74   3   0   1  44
  subtype2  24   2   0   0   6
  subtype3 102   6   1   2  54
D12V9, multiclass
          vv
clus        N0  N1  N2  N3  NX
  subtype1  76  27  15   0   4
  subtype2  16  10   7   0   0
  subtype3 116  20  27   1   2
D12V10, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1  65   2   1   7
  subtype2  21   1   0   0
  subtype3 101   4   0   5
D12V11, multiclass
D12V12, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE IIA STAGE IIB STAGE IIIA STAGE IIIB
  subtype1       0       37       31        11        18         17          2
  subtype2       0        8        7         5         3          7          1
  subtype3       3       36       55        13        20         25          6
          vv
clus       STAGE IV
  subtype1        6
  subtype2        2
  subtype3        8
D12V13, multiclass
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
           "KARNOFSKY.PERFORMANCE.SCORE" 
                                      V5 
                     "HISTOLOGICAL.TYPE" 
                                      V6 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V7 
                 "NUMBERPACKYEARSSMOKED" 
                                      V8 
             "YEAROFTOBACCOSMOKINGONSET" 
                                      V9 
                    "DISTANT.METASTASIS" 
                                     V10 
                 "LYMPH.NODE.METASTASIS" 
                                     V11 
             "COMPLETENESS.OF.RESECTION" 
                                     V12 
                       "TUMOR.STAGECODE" 
                                     V13 
                 "NEOPLASM.DISEASESTAGE" 
> q(save="no")
