ucscGenomes

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Get available genomes on UCSC

Get a data.frame describing the available UCSC genomes.

Keywords
interface
Usage
ucscGenomes(organism=FALSE)
Arguments
organism
A logical(1) indicating whether scientific name should be appended.
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.

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")

See Also

UCSCSession for details on specifying the genome.

Aliases
  • ucscGenomes
Examples
ucscGenomes()
Documentation reproduced from package rtracklayer, version 1.32.1, License: Artistic-2.0 + file LICENSE

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