getIdeo {IdeoViz} | R Documentation

## Download ideogram table from UCSC

### Description

Download ideogram table from UCSC

### Usage

    getIdeo(ideoSource)

### Arguments

`ideoSource` | (character) Genome build for data (e.g. mm10).

### Details

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()`).

### Value

(data.frame) ideogram table

### See Also

`avgByBin()`,`getBins()`

### Examples

    getIdeo("mm9")

[Package IdeoViz version 1.16.0 Index]