enrichGO_model: GO enrichment for model organism.

In Tong-Chen/YSX: For Yishengxin Training

Description

GO enrichment for model organism.

Usage

enrichGO_model(
  de_file,
  org_db = "org.Hs.eg.db",
  output_prefix = NULL,
  pvalueCutoff = 0.05,
  qvalueCutoff = 0.2,
  setReadable = TRUE,
  typeL = c("BP", "MF", "CC")
)

Arguments

de_file	Two columns file with first column containing DE genes and second column with group names.
org_db	R annotation package like org.Hs.eg.db.
output_prefix	Output prefix.
pvalueCutoff	Default 0.05
qvalueCutoff	Default 0.2
setReadable	Transfer gene ids to gene symbol. Default True.
typeL	A vector with default ad c("BP", "MF", "CC").

Examples

enrichGO_model(de_file, output_prefix=output_prefix)

Tong-Chen/YSX documentation built on Jan. 25, 2021, 2:49 a.m.