GOfuncR gene ontology enrichment testing

Perform Gene Ontology enrichment analysis of DMRs using GOfuncR.

Usage

GOfuncR(
  sigRegions = sigRegions,
  regions = regions,
  n_randsets = 1000,
  upstream = 5000,
  downstream = 1000,
  annoDb = annoDb,
  TxDb = TxDb,
  ...
)

Arguments

sigRegions

GRanges object of DMRs.

regions

GRanges object of background regions.

n_randsets

Number specifying the number of random sets for calculating the FWER.

upstream

Numeric of how many bases to extend upstream from gene body for mapping DMRs to genes.

downstream

Numeric of how many bases to extend downstream from gene body for mapping DMRs to genes.

annoDb

Character specifying OrgDb annotation package for species of interest.

TxDb

TxDb or EnsDb annotation package for genome of interest.

...

Additional arguments passed onto GOfuncR::go_enrich().

Details

GOfuncR