| ClinicalAnalysisAllGenes_new1 data file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MethylationPreprocess/SKCM-BRAF_Hotspot_Mutants/3155607/0.GDAC_MethylationPreprocess.Finished/SKCM-BRAF_Hotspot_Mutants.meth.for_correlation.filtered_data.txt |
| ClinicalAnalysisAllGenes_new1 clinical file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/SKCM-BRAF_Hotspot_Mutants/3215663/SKCM-BRAF_Hotspot_Mutants.clin.merged.picked.txt |
| ClinicalAnalysisAllGenesReport_nozzle2 cutoff p | 1 |
| ClinicalAnalysisAllGenesReport_nozzle2 cutoff fdr | 0.05 |
| ClinicalAnalysisAllGenesReport_nozzle2 max table rows | 10 |
| ClinicalAnalysisAllGenesReport_nozzle2 nozzle ver | Nozzle.R1 |
| ClinicalAnalysisAllGenesReport_nozzle2 options | METHYLATION |
| Execution Times: | |
| Submitted: | 11:06:35 10-05-13 |
| Completed: | |
| Elapsed: | 00 hrs 16 mins 15 secs |
step 1. ClinicalAnalysisAllGenes_new [id: 404248] Associate individual gene expression profiles to clinical parameters by survival test, t-test, correlation test, or ANOVA test
urn:lsid:broadinstitute.org:cancer.genome.analysis:00333:14
| data file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MethylationPreprocess/SKCM-BRAF_Hotspot_Mutants/3155607/0.GDAC_MethylationPreprocess.Finished/SKCM-BRAF_Hotspot_Mutants.meth.for_correlation.filtered_data.txt |
| clinical file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/SKCM-BRAF_Hotspot_Mutants/3215663/SKCM-BRAF_Hotspot_Mutants.clin.merged.picked.txt |
| genes filtered by list | |
| genes filtered by variance | ALL |
| samples filtered by list | |
| features used | ALL |
| output name | |
| job description |
| Execution Times: | |
| Submitted: | 11:06:40 10-05-13 |
| Completed: | 11:22:34 10-05-13 |
| Elapsed: | 00 hrs 15 mins 53 secs |
step 2. ClinicalAnalysisAllGenesReport_nozzle [id: 404249] Generate a report to summarize the results from ClinicalAnalysisAllGenes module
urn:lsid:broadinstitute.org:cancer.genome.analysis:00334:29
| all result file | SKCM-BRAF_Hotspot_Mutants.meth.for_correlation.filtered_data.clinical.results.txt |
| RData file | SKCM-BRAF_Hotspot_Mutants.meth.for_correlation.filtered_data.analysis.results.RData |
| expression file | SKCM-BRAF_Hotspot_Mutants.meth.for_correlation.filtered_data.exprdata.gct |
| clinical file | SKCM-BRAF_Hotspot_Mutants.clin.merged.picked.clindata.txt |
| cutoff p | 1 |
| cutoff fdr | 0.05 |
| max table rows | 10 |
| nozzle ver | Nozzle.R1 |
| options | METHYLATION |
| report title | |
| job description |
| Execution Times: | |
| Submitted: | 11:06:40 10-05-13 |
| Completed: | 11:22:49 10-05-13 |
| Elapsed: | 00 hrs 16 mins 08 secs |