| preprocessPARADIGM1 evidence prefix | COADREAD |
| preprocessPARADIGM1 expression file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/COADREAD/1227613/0.GDAC_mRNA_Preprocess_Median.Finished/COADREAD.medianexp.txt |
| preprocessPARADIGM1 copynumber file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/writeReducedSegments/COADREAD/1228715/1.GetReducedSegments.Finished/COADREAD.RS.tsv |
| PARADIGMLite2 config file | file:/xchip/cga/reference/PARADIGM/config.txt |
| PARADIGMLite2 run id | 1 |
| Execution Times: | |
| Submitted: | 05:59:08 15-05-12 |
| Completed: | |
| Elapsed: | 00 hrs 11 mins 12 secs |
step 1. preprocessPARADIGM [id: 92038] 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/1227613/0.GDAC_mRNA_Preprocess_Median.Finished/COADREAD.medianexp.txt |
| copynumber file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/writeReducedSegments/COADREAD/1228715/1.GetReducedSegments.Finished/COADREAD.RS.tsv |
| Output Files: | |
| Evidence_COADREAD.zip | |
| stdout.txt | |
| Execution Times: | |
| Submitted: | 05:59:08 15-05-12 |
| Completed: | 06:03:35 15-05-12 |
| Elapsed: | 00 hrs 04 mins 26 secs |
step 2. PARADIGMLite [id: 92039] 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: | 05:59:08 15-05-12 |
| Completed: | 06:10:18 15-05-12 |
| Elapsed: | 00 hrs 11 mins 10 secs |