rtracklayer (version 1.32.1)

ucscGenomes: Get available genomes on UCSC

Description

Get a data.frame describing the available UCSC genomes.

Usage

ucscGenomes(organism=FALSE)

Arguments

organism

A logical(1) indicating whether scientific name should be appended.

Value

A data.frame with the following columns:

db

UCSC DB identifier (e.g. "hg18")

species

The name of the species (e.g. "Human")

date

The date the genome was built

name

The official name of the genome build

organism

The scientific name of the species (e.g. "Homo sapiens")

Details

For populating the organism column, the web url http://genome.ucsc.edu/cgi-bin is scraped for every assembly version to get the scientific name.

See Also

UCSCSession for details on specifying the genome.

Examples

ucscGenomes()