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Convert gene symbols to Ensembl IDs

geneSymbolToEnsembl.Rd

NOTE: This function requires an internet connection.

Usage

geneSymbolToEnsembl(
  gene.symbols,
  ncbi.taxid = 9606,
  use.synonyms = TRUE,
  remove.duplicates = TRUE,
  includeNonMammalianSpecies = FALSE
)

Arguments

gene.symbols

List of gene symbols to convert to Ensembl IDs.

ncbi.taxid

The integer part of the NCBITaxon ID for the species want to convert genes between.

use.synonyms

If TRUE (default) will search synonyms for current gene symbols to try and match Ensembl IDs

remove.duplicates

If TRUE (default) any genes that share Ensembl IDs with any other genes will have their Ensembl IDs set to NA to avoid ambiguity. In cases where a duplicate is introduced in the synonyms, the original gene.symbol will retain the Ensembl IDs and synonym duplicates will be set to NA.

includeNonMammalianSpecies

Default (FALSE) only considers mammalian species. Set to TRUE if non-mammalian species are considered (much slower).

Value

Ensembl IDs for the input gene.symbols (or NA if not found or if duplicated)