mapGeneNamesToNcbi: Map gene names to NCBI

In acidgenomics/r-acidgenomes: Acid Genomics Genome Annotations

Map gene names to NCBI

Description

Map gene names to NCBI

Usage

mapGeneNamesToNcbi(genes, organism, taxonomicGroup = NULL, ncbi = NULL)

Arguments

genes	character. Gene names (e.g. "TUT4").
organism	character(1). Full Latin organism name (e.g. "Homo sapiens").
taxonomicGroup	character(1). NCBI FTP server taxonomic group subdirectory path (e.g. "Mammalia"). Defining this manually avoids having to query the FTP server.
ncbi	NcbiGeneIfo or NULL. If NULL, NCBI annotations will be downloaded automatically.

Note

Updated 2023-03-03.

Examples

## Homo sapiens.
x <- mapGeneNamesToNcbi(
    genes = c("TUT4", "ZCCHC11", "TENT3A"),
    organism = "Homo sapiens"
)
print(x)

## Mus musculus.
x <- mapGeneNamesToNcbi(
    genes = c("Nfe2l2", "Nrf2"),
    organism = "Mus musculus"
)
print(x)

acidgenomics/r-acidgenomes documentation built on Jan. 12, 2024, 4:06 a.m.