| preprocessPARADIGM1 evidence prefix | COADREAD |
| preprocessPARADIGM1 expression file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/COADREAD/718810/0.GDAC_mRNA_Preprocess_Median.Finished/COADREAD.medianexp.txt |
| preprocessPARADIGM1 copynumber file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/writeReducedSegments/COADREAD/718074/1.GetReducedSegments.Finished/COADREAD.RS.tsv |
| PARADIGMLite2 config file | file:/xchip/cga/reference/PARADIGM/config.txt |
| PARADIGMLite2 run id | 1 |
| Execution Times: | |
| Submitted: | 14:37:21 08-01-12 |
| Completed: | |
| Elapsed: | 00 hrs 12 mins 28 secs |
step 1. preprocessPARADIGM [id: 51430] Preprocessing module for broad data input to PARADIGM
urn:lsid:broadinstitute.org:cancer.genome.analysis:00238:25
| evidence prefix | COADREAD |
| expression file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/COADREAD/718810/0.GDAC_mRNA_Preprocess_Median.Finished/COADREAD.medianexp.txt |
| copynumber file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/writeReducedSegments/COADREAD/718074/1.GetReducedSegments.Finished/COADREAD.RS.tsv |
| Output Files: | |
| Evidence_COADREAD.zip | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 14:37:21 08-01-12 |
| Completed: | 14:41:24 08-01-12 |
| Elapsed: | 00 hrs 04 mins 02 secs |
step 2. PARADIGMLite [id: 51431] PARADIGM allows for pathway level inference using libdai (Written by: Steve Benz and Charles Vaske)
urn:lsid:broadinstitute.org:cancer.genome.analysis:00237:26
| evidence zip | Evidence_COADREAD.zip |
| pathway zip | |
| config file | file:/xchip/cga/reference/PARADIGM/config.txt |
| run id | 1 |
| Output Files: | |
| 1-COADREAD_pathlette_IPA-paradigmlite-dev.txt | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 14:37:21 08-01-12 |
| Completed: | 14:49:49 08-01-12 |
| Elapsed: | 00 hrs 12 mins 27 secs |