enrich_ora: enrich_ora

In soulong/bioTools: a bundle of tools faciliating RNAseq DGEs analysis, enrichment analysis

enrich_ora

Description

ORA enrichment using internal db

Usage

enrich_ora(
  genes,
  species = "hs",
  keytype = "symbol",
  db = "GO",
  go_ontology = "BP",
  pvalue_cutoff = 0.05,
  qvalue_cutoff = 0.2,
  min_size = 10,
  max_size = 400,
  ...
)

Arguments

genes	character vector, must be gene symbols
species	character, must be one of hs, mm
keytype	character, indicating genes type, one of entrezid, symbol
db	character, which internal db to enrich, one of GO, KEGG
go_ontology	which GO ontology to use, one or more of BP, MF, CC, only works if db contains GO
pvalue_cutoff	pvalueCutoff
qvalue_cutoff	qvalueCutoff
min_size	min set size
max_size	max set size
...	additional parameters pass to clusterProfiler::enricher

Value

enrichResult from enricher

soulong/bioTools documentation built on Aug. 23, 2023, 1:35 a.m.