GSEA_EM: Export GSEA results to format compatible with enrichment map...

In kevincjnixon/BinfTools: Useful functions for standard analyses

Export GSEA results to format compatible with enrichment map (cytoscape)

Description

Export GSEA results to format compatible with enrichment map (cytoscape)

Usage

GSEA_EM(gsea, rnk, prefix = NULL, gmt = NULL, retEM = FALSE)

Arguments

gsea	GSEA results from GSEA() function
rnk	RNK object used to generate GSEA results
prefix	Character of prefix for output files. Files will be named prefix_neg_report.tsv and prefix_pos_report.tsv. If NULL, prefix will be "GSEA"
gmt	file or address to gmt file used for gsea results. Use only if you need to save gmt to file (if you have it already saved to file, leave NULL)
retEM	Boolean indicating if enrichment map tables should be returned to R for use with RCy3 (default=FALSE)

kevincjnixon/BinfTools documentation built on July 10, 2024, 11:46 a.m.