Annotate Ensembl gene IDs using a local Bioconductor OrgDb

Adds the stable Ensembl ID (version suffix removed), gene symbol, Entrez ID, and description from org.Hs.eg.db or org.Mm.eg.db. The original RSEM gene_id is always kept. When an Ensembl ID maps to several Entrez records, the record with the most filled fields is kept. annotation_status is mapped when the OrgDb returned at least one of the symbol, Entrez ID, or description, and unmapped otherwise (including non-Ensembl IDs such as spike-ins).

Usage

annotate_ensembl(study, species = "auto")

Arguments

study

A rsemflow_study or study path.

species

auto, human, or mouse.

Value

A gene annotation data frame.