filterPathways: Filter pathways by multiple criteria

In guokai8/richR: Function Enrichment analysis and Network construction

Filter pathways by multiple criteria

Description

Filter pathways by multiple criteria

Usage

filterPathways(
  gseaRes,
  nes_cutoff = NULL,
  padj_cutoff = 0.05,
  pval_cutoff = 0.05,
  min_size = NULL,
  max_size = NULL,
  direction = "both"
)

Arguments

gseaRes	GSEAResult object
nes_cutoff	absolute NES cutoff
padj_cutoff	padj cutoff
pval_cutoff	pval cutoff (used if padj_cutoff is NULL)
min_size	minimum pathway size
max_size	maximum pathway size
direction	filter by direction ("up", "down", or "both")

Author(s)

Kai Guo

Examples

## Not run: 
filtered <- filterPathways(gseaRes, nes_cutoff = 1.5, padj_cutoff = 0.01, direction = "up")

## End(Not run)

guokai8/richR documentation built on June 10, 2025, 4:51 a.m.