GSEA.deg2gs

GSEA.deg2gs

Reads a rnaseq pipeliner *_DEG_all_genes.txt file and outputs a prioritized list of Ensembl gene IDs for ToppFun

Author: Susan Huse

NIAID Center for Biological Research

Frederick National Laboratory for Cancer Research

Leidos Biomedical

• v 1.0 - initial code version.
• v 1.1 - updated for new column headers in pipeliner limma_DEG_all_genes.txt
• v 1.2 - top2Excel format is now csv rather than tab-delimited

Functions

Name	Description
filter_by_p	Filter rows by p-value.
main	Run the CLI.

filter_by_p

GSEA.deg2gs.filter_by_p(x, nhits, pvalue, qvalue)

Filter rows by p-value.

main

GSEA.deg2gs.main()

Run the CLI.