findEnrichedFunctions: findEnrichedFunctions

In BIMSBbioinfo/RCAS: RNA Centric Annotation System

findEnrichedFunctions

Description

Find enriched functional terms among the genes that overlap the regions of interest.

Usage

findEnrichedFunctions(targetGenes, species, ...)

Arguments

targetGenes	Vector of Ensembl gene ids or gene names
species	First letter of genus + species name: e.g. hsapiens
...	Other arguments to be passed to gprofiler2::gost

Details

This function is basically a call to gprofiler2::gost function. It is here to serve as a replacement for other deprecated functional enrichment functions.

Examples

data(gff)
data(queryRegions)

overlaps <- queryGff(queryRegions, gff)
res <- findEnrichedFunctions(unique(overlaps$gene_id), 'hsapiens')

BIMSBbioinfo/RCAS documentation built on Feb. 7, 2024, 4:38 p.m.