Revision: 2:17eb1e0d711f

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/fgsea

Miscellaneous

Name: fgsea

Description: - fast preranked gene set enrichment analysis

Id: fgsea

Guid: toolshed.g2.bx.psu.edu/repos/iuc/fgsea/fgsea/1.8.0+galaxy1

Version: 1.8.0+galaxy1

Version command string: echo $(R --version | grep version | grep -v GNU)", fgsea version" $(R --vanilla --slave -e "library(fgsea); cat(sessionInfo()\$otherPkgs\$fgsea\$Version)" 2> /dev/null | grep -v -i "WARNING: ")", optparse version" $(R --vanilla --slave -e "library(optparse); cat(sessionInfo()\$otherPkgs\$optparse\$Version)" 2> /dev/null | grep -v -i "WARNING: ")

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

toolshed.g2.bx.psu.edu/repos/iuc/fgsea/fgsea/1.8.0+galaxy1 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/fgsea/fgsea/1.8.0

toolshed.g2.bx.psu.edu/repos/iuc/fgsea/fgsea/1.6.0

fgsea

Requirements (dependencies defined in the <requirements> tag set)

Requirements:

name	version	type
bioconductor-fgsea	1.8.0	package
r-optparse	1.6.0	package

Functional tests

name	inputs	outputs	required files
Test-1	plot_opt: True rnk_file: t47d_Treatment_DEA_Prog-vs-Control_all_for_GSEA.rnk sets_file: h.all.v6.2.symbols.gmt	attributes: name attributes: name	t47d_Treatment_DEA_Prog-vs-Control_all_for_GSEA.rnk h.all.v6.2.symbols.gmt name
Test-2	plot_opt: True rnk_file: t47d_entrez_ids.rnk sets_file: human_H_v5p2.rdata	attributes: name attributes: name	t47d_entrez_ids.rnk human_H_v5p2.rdata name