[1] "terrence_modification_tag"
[1] TRUE
[1] "dfn"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/mRNAseq_preprocessor/GBM-TP/8100417/GBM-TP.uncv2.mRNAseq_RSEM_normalized_log2.txt"
[1] "cfn"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/GBM-TP/8142876/GBM-TP.merged_data.txt"
[1] "gv"
[1] "ALL"
[1] "gfn"
[1] "ALL"
[1] "sfn"
[1] ""
[1] "fv"
[1] "ALL"
[1] "ofn"
[1] ""
[1] "dx"
[1] ""
[1] "sfn"
[1] ""
[1] FALSE
[1] "cfn"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/GBM-TP/8142876/GBM-TP.merged_data.txt"
[1] "ok3"

nSamples in clinical file=582, in expression file=153, common to both=152
Number of genes in original expression dataset=18210
[1] "ALL"
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDESEASE"                  
 [6] "DCCUPLOADDATE"                         
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "RADIATIONTHERAPY"                      
[10] "KARNOFSKYPERFORMANCESCORE"             
[11] "HISTOLOGICALTYPE"                      
[12] "RADIATIONS.RADIATION.REGIMENINDICATION"
[13] "BATCHNUMBER"                           

Input Data has 13 rows and 152 columns.

[1] "Batch" "13"   
[1] "Last Follow UP"
TCGA-02-0047 TCGA-02-0055 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0125 
         448           76          466          470          493         1439 
TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0138 TCGA-06-0141 TCGA-06-0156 
         989          320          570          674          280          164 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0168 TCGA-06-0174 TCGA-06-0178 TCGA-06-0184 
          97          166          579           67         1642         1228 
TCGA-06-0187 TCGA-06-0190 TCGA-06-0210 TCGA-06-0211 TCGA-06-0219 TCGA-06-0238 
         801          313          151          360           11          359 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0649 TCGA-06-0686 TCGA-06-0743 
         375           98          136           62          286          679 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0878 
         595          164           82           66           28          218 
TCGA-06-0882 TCGA-06-1804 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
         165          414           33           23          150          282 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2567 TCGA-06-2569 
          86          932          181          207          133           13 
TCGA-06-2570 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
         958          342          108          254          138          268 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5417 TCGA-06-5418 TCGA-06-5856 
         273          260          204          155           83          114 
TCGA-06-5858 TCGA-06-5859 TCGA-08-0386 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 
         187          139          478          439           50          316 
TCGA-12-0821 TCGA-12-1597 TCGA-12-3650 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
         323          427          333         1050          357          399 
TCGA-12-5299 TCGA-14-0781 TCGA-14-0787 TCGA-14-0789 TCGA-14-0790 TCGA-14-0817 
          98           29           68          342          419          164 
TCGA-14-1034 TCGA-14-1823 TCGA-14-1825 TCGA-14-1829 TCGA-14-2554 TCGA-15-0742 
         485          543          232          218          532          300 
TCGA-15-1444 TCGA-16-0846 TCGA-16-1045 TCGA-19-1390 TCGA-19-1787 TCGA-19-2619 
          NA          119          883          772          385          294 
TCGA-19-2620 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-4065 TCGA-19-5960 
         148            5          124          501          214          165 
TCGA-26-1442 TCGA-26-5132 TCGA-26-5133 TCGA-26-5134 TCGA-26-5135 TCGA-26-5136 
         953          286          452          167          270           37 
TCGA-26-5139 TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1834 TCGA-27-1835 
          48          146          505           NA         1008          648 
TCGA-27-1837 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 
         427          316          316          489          231           87 
TCGA-27-2528 TCGA-28-1747 TCGA-28-1753 TCGA-28-2499 TCGA-28-2509 TCGA-28-2513 
         480           77           37           95          145          222 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5213 
         160          119          275          474          442          298 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5220 TCGA-32-1970 TCGA-32-1980 
         237          415          128          319          468           36 
TCGA-32-1982 TCGA-32-2615 TCGA-32-2616 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
         142          485          224          269          693          644 
TCGA-32-4213 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-3915 TCGA-41-4097 
         604          323           26          406          360            6 
TCGA-41-5651 TCGA-76-4925 TCGA-76-4926 TCGA-76-4927 TCGA-76-4928 TCGA-76-4929 
         351          146          138          535           94          111 
TCGA-76-4931 TCGA-76-4932 
         279         1458 
Variable 1:'AGE':	nDistinctValues=50,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=103,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=134,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=15,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=6,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'HISTOLOGICAL.TYPE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'BATCH.NUMBER':	nDistinctValues=14,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                                   
[2] "GENDER"                                
[3] "KARNOFSKY.PERFORMANCE.SCORE"           
[4] "RADIATIONS.RADIATION.REGIMENINDICATION"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 152 columns, 1 survival variables, and 4 non-survival variables.
                              D                 
            "D" "Time to Death"         "Month" 
AGE, nv=50, binary=FALSE, numeric=TRUE
LOC84856|84856 
          9190 
GENDER, nv=2, binary=FALSE, numeric=FALSE
XIST|7503 
    17359 
KARNOFSKY.PERFORMANCE.SCORE, nv=6, binary=FALSE, numeric=TRUE
ZNF415|55786 
       17831 
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
TIAF1|9220 
     15843 
[1] "saved param, results, example.expr in analysis.result.Rdata "
