enricher_loop: Create gene ontology enrichment for a given dataset
In HCGB-IGTP/HCGB.IGTP.DAnalysis: Useful in-house functions for multiple analysis

enricher_loop

R Documentation

Create gene ontology enrichment for a given dataset

Description

Gets gene enrichment using clusterprofiler for the set of genes desired

Usage

enricher_loop(
  list_of_sets,
  geneUniverse,
  GO_folder,
  tag2use,
  org.Db2use = "org.Hs.eg.db",
  ont_types = c("CC", "BP", "MF"),
  keyType.given = "SYMBOL"
)

Arguments

`list_of_sets`	List of dataset to use
`geneUniverse`	List of total genes to use as "Universe"
`GO_folder`	Folder to store results
`tag2use`	Tag name to include
`org.Db2use`	Database to use: Default: 'org.Hs.eg.db'. It should be loaded first: library('org.Hs.eg.db')
`ont_types`	List of ontologies classes to use. Default: c('CC', 'BP', 'MF')
`keyType.given`	SYMBOL as default. See keytypes(org.Hs.eg.db) as an example for putative keys to use