GOtest: Convert ENSG IDs to ENTREZ IDs adapted from...

In jhsiao999/Humanzee: Tools for statistical analysis of genomics data

Description

Convert ENSG IDs to ENTREZ IDs adapted from http://davetang.org/muse/2010/11/10/gene-ontology-enrichment-analysis/

Usage

GOtest(my_ensembl_gene_universe, my_ensembl_gene_test, pval_cutoff = 0.01,
  ontology = c("BP", "CC", "MF"), conditional.method = F)

Arguments

my_ensembl_gene_universe	Gene universe
my_ensembl_gene_test	Genes of interest
pval_cutoff	cutoff when determining significant enrichment GO terms
ontology	A list of GO ontologies that will be tested in the enrichment anlaysis. Default: ontology=c("BP","CC","MF").
pval_cutoff	Cutoff when determining significant enrichment GO terms. Default: pval_cutoff = .01.

Value

hg_over Lists of enrichment test results, each one is a GOHyperGResult instance of the GOstats package.

Examples

GOtest()

jhsiao999/Humanzee documentation built on May 19, 2019, 9:28 a.m.