AliasGeneNames: AliasGeneNames

In bimberlabinternal/OOSAP: OHSU-ONPRC Single-cell Analysis Package

Description

This function accepts a vector of gene names. It will first query Ensembl to attempt to translate ID to gene symbol. Any names not translated will be compared for human homologs. Finally, these symbols will be compared to CD genes, and the CD name appended (if found).

Usage

AliasGeneNames(
  ensemblIds,
  biomart = "ensembl",
  dataset = "mmulatta_gene_ensembl",
  ensemblFilters = c("ensembl_gene_id"),
  ensemblVersion = NULL
)

Arguments

ensemblIds	A vector of ensembl IDs, passed to the getBM() filters argument
biomart	Passed directly to biomaRt::useEnsembl
dataset	Passed directly to biomaRt::useEnsembl
ensemblFilters	A vector of ensembl IDs, passed to the getBM() filters argument.
ensemblVersion	Passed directly as version to biomaRt::useEnsembl

bimberlabinternal/OOSAP documentation built on Jan. 19, 2021, 2:47 a.m.