IdeoViz (version 1.6.0)

getIdeo: Download ideogram table from UCSC

Description

Download table containing chromosomal extent and band locations from the UCSC genome browser

Usage

getIdeo(ideoSource)

Arguments

ideoSource

(character) Genome build for data (e.g. mm10).

Value

Details

Uses rtracklayer to retrieve the cytoBandIdeo table from the UCSC genome browser. The cytoBandIdeo table contains chromosomal ideogram information and is used to graph the chromosomal bands in plotOnIdeo(). This table is provided as input to plotOnIdeo(). In the case where the user bins the data, the output of this function can also be used as input to generate bin coordinates for binning the data (see avgByBin()).

See Also

avgByBin(),getBins()