ChIPpeakAnno (version 3.6.4)

convert2EntrezID: Convert other common IDs to entrez gene ID.

Description

Convert other common IDs such as ensemble gene id, gene symbol, refseq id to entrez gene ID leveraging organism annotation dataset. For example, org.Hs.eg.db is the dataset from orgs.Hs.eg.db package for human, while org.Mm.eg.db is the dataset from the org.Mm.eg.db package for mouse.

Usage

convert2EntrezID(IDs, orgAnn, ID_type="ensembl_gene_id")

Arguments

IDs

a vector of IDs such as ensembl gene ids

orgAnn

organism annotation dataset such as org.Hs.eg.db

ID_type

type of ID: can be ensemble_gene_id, gene_symbol or refseq_id

Value

• vector of entrez ids

Examples

ensemblIDs = c("ENSG00000115956", "ENSG00000071082", "ENSG00000071054",
 "ENSG00000115594", "ENSG00000115594", "ENSG00000115598", "ENSG00000170417")
library(org.Hs.eg.db)
entrezIDs = convert2EntrezID(IDs=ensemblIDs, orgAnn="org.Hs.eg.db",
 ID_type="ensembl_gene_id")