todisp2: Convenience Function to Convert Ensembl Gene IDs to Gene...

In convertid: Convert Gene IDs Between Each Other and Fetch Annotations from Biomart

Convenience Function to Convert Ensembl Gene IDs to Gene Symbols

Description

todisp2() uses Biomart by employing get.bm() to retrieve Gene Symbols for a set of Ensembl Gene IDs. It is mainly meant as a fast way to convert IDs in standard gene expression analysis output to Symbols, e.g., for visualisation, which is why the input ID type is hard coded to ENSG IDs. If Biomart is not available the function can fall back to use convertId2() or a user-provided data frame with corresponding ENSG IDs and Symbols.

Usage

todisp2(ensg, lab = NULL, biomart = TRUE, verbose = FALSE)

Arguments

ensg	(character). Vector of Ensemble Gene IDs. Other ID types are not yet supported.
lab	(data.frame). A data frame with Ensembl Gene IDs as row names and Gene Symbols in the only column.
biomart	(logical). Should Biomart be used? Defaults to TRUE.
verbose	(logical). Should verbose output be written to the console? Defaults to FALSE.

Value

A character vector of Gene Symbols.

See Also

get.bm

Examples

## Not run: 
val <- c("ENSG00000111199", "ENSG00000134121", "ENSG00000176102", "ENSG00000171611")
sym <- todisp2(val)
sym

## End(Not run)

convertid documentation built on April 4, 2025, 1:01 a.m.