getIdeo: Download ideogram table from UCSC
In IdeoViz: Plots data (continuous/discrete) along chromosomal ideogram

Description Usage Arguments Details Value See Also Examples

Download ideogram table from UCSC

1	getIdeo(ideoSource)

ideoSource

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

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

(data.frame) ideogram table

avgByBin(),getBins()