Map Ensembl Gene IDs to Gene Symbols using biomaRt — map_ensg_to_gene_using

This function uses biomaRt to retrieve gene symbols based on Ensembl gene IDs.

Usage

map_ensg_to_gene_using_biomaRt(
  ensembl_ids,
  ensembl_col = NULL,
  type = c("combine", "first"),
  sep = "/",
  genome = c("hg19", "hg38"),
  verbose = F
)

Arguments

ensembl_ids: A character vector of Ensembl gene IDs, or a data frame containing this information.
ensembl_col: If ensembl_ids is a data frame, specify the column name containing the Ensembl gene IDs.
type: How to handle cases where one Ensembl ID maps to multiple gene symbols. Options are "combine" (default) to combine them with a separator or "first" to only use the first symbol.
sep: The separator to deal with one ensg mapped to multiple gene. Default with "/".
genome: The genome version to use: "hg19" or "hg38".
verbose: Logical indicating whether to print the unmapped information.

Value

A data frame containing Ensembl gene IDs and corresponding gene symbols.

Examples

if (FALSE) { # \dontrun{
# Query using Ensembl gene IDs
ensembl_ids <- c("ENSG00000141510", "ENSG00000012048", "ENSG00000146648")
map_ensg_to_gene_using_biomaRt(ensembl_ids = ensembl_ids, genome = "hg19")

# Use a data frame as input
gene_df <- data.frame(ensembl_id = ensembl_ids, value = c(1.2, 3.4, 5.6))
map_ensg_to_gene_using_biomaRt(ensembl_ids = gene_df, ensembl_col = "ensembl_id", genome = "hg19")
} # }