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ucscGenomes

Get available genomes on UCSC

Get a data.frame describing the available UCSC genomes.

ucscGenomes(organism=FALSE)

organism

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

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.

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")

Michael Lawrence

ucscGenomes()

R interface to genome annotation files and the UCSC genome browser

v1.50.0

Artistic-2.0 + file LICENSE

Authors

Michael Lawrence, Vince Carey, Robert Gentleman

Initial release