XYomics (version 0.1.2)

improved_pathway_enrichment: Improved Pathway Enrichment Analysis

Description

Performs pathway enrichment analysis on a set of sex-biased genes using clusterProfiler.

Usage

improved_pathway_enrichment(
  gene_list,
  enrichment_db = "KEGG",
  organism = "hsa",
  org_db = org.Hs.eg.db,
  pvalueCutoff = 0.05,
  qvalueCutoff = 0.2
)

Value

An enrichment result object.

Arguments

gene_list

A character vector of gene identifiers.

enrichment_db

Character string specifying the database for enrichment. Options include "KEGG", "GO", and "Reactome". Default is "KEGG".

organism

Character string specifying the organism code (e.g., "hsa" for human).

org_db

database of the organism (e.g: "org.Hs.eg.db")

pvalueCutoff

Numeric. P-value cutoff for enrichment (default: 0.05).

qvalueCutoff

Numeric. Q-value cutoff for enrichment (default: 0.2).