ClinicalAnalysisAllGenes_new1 data file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/KIRP/1590232/0.GDAC_mRNA_Preprocess_Median.Finished/KIRP.medianexp.txt |
ClinicalAnalysisAllGenes_new1 clinical file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/KIRP/1552281/1.GDAC_clinicalDataPicker.Finished/KIRP.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 | MRNA_EXPR |
Execution Times: | |
Submitted: | 17:57:53 01-08-12 |
Completed: | |
Elapsed: | 00 hrs 13 mins 46 secs |
step 1. ClinicalAnalysisAllGenes_new [id: 140695] 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:00333:11
data file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/KIRP/1590232/0.GDAC_mRNA_Preprocess_Median.Finished/KIRP.medianexp.txt |
clinical file | file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/KIRP/1552281/1.GDAC_clinicalDataPicker.Finished/KIRP.clin.merged.picked.txt |
genes filtered by list | |
genes filtered by variance | ALL |
samples filtered by list | |
features used | ALL |
output name | |
job description |
Output Files: | |
KIRP.clin.merged.picked.clindata.txt | |
KIRP.medianexp.exprdata.gct | |
KIRP.medianexp.analysis.results.RData | |
KIRP.medianexp.clinical.results.txt | |
.lsf.out | |
stdout.txt |
Execution Times: | |
Submitted: | 17:57:53 01-08-12 |
Completed: | 18:10:39 01-08-12 |
Elapsed: | 00 hrs 12 mins 45 secs |
step 2. ClinicalAnalysisAllGenesReport_nozzle [id: 140696] Generate a report to summarize the results from ClinicalAnalysisAllGenes module
urn:lsid:broadinstitute.org:cancer.genome.analysis:00334:20
all result file | KIRP.medianexp.clinical.results.txt |
RData file | KIRP.medianexp.analysis.results.RData |
expression file | KIRP.medianexp.exprdata.gct |
clinical file | KIRP.clin.merged.picked.clindata.txt |
cutoff p | 1 |
cutoff fdr | 0.05 |
max table rows | 10 |
nozzle ver | Nozzle.R1 |
options | MRNA_EXPR |
report title | |
job description |
Output Files: | |
table1.txt | |
supp.table1.txt | |
V2ex.png | |
nozzle.html | |
V3ex.png | |
V2ex.pdf | |
table6.txt | |
table4.txt | |
.lsf.out | |
nozzle.RData | |
V3ex.pdf | |
stdout.txt |
Execution Times: | |
Submitted: | 17:57:53 01-08-12 |
Completed: | 18:11:38 01-08-12 |
Elapsed: | 00 hrs 13 mins 45 secs |