Mulea: An R package for enrichment analysis using multiple ontologies and empirical false discovery rate.

ABSTRACT: Traditional gene set enrichment analyses are typically limited to a few ontologies and do not account for the interdependence of gene sets or terms, resulting in overcorrected p-values. To address these challenges, we introduce mulea, an R package offering comprehensive overrepresentation and functional enrichment analysis. mulea employs a progressive empirical false discovery rate (eFDR) method, specifically designed for interconnected biological data, to accurately identify significant terms within diverse ontologies. mulea expands beyond traditional tools by incorporating a wide range of ontologies, encompassing Gene Ontology, pathways, regulatory elements, genomic locations, and protein domains. This flexibility enables researchers to tailor enrichment analysis to their specific questi

SUBMITTER: Turek C 

PROVIDER: S-EPMC11490090 | biostudies-literature | 2024 Oct

REPOSITORIES: biostudies-literature