getIdeogram {biovizBase} | R Documentation

## Get ideogram.

### Description

Get ideogram w/o cytoband for certain genome

### Usage

    getIdeogram(genome, subchr, cytobands=TRUE)

### Arguments

`genome` | Single specie names, which must be one of the result from `ucscGenomes()$db`. If missing, will invoke a menu for users to choose from.
`subchr` | A character vector used to subset the result.
`cytobands` | If TRUE, return ideogram with gieStain and name column. If FALSE, simply return the genome information for each chromosome.

### Details

This function require a network connection, it will parse the data on the fly, function is a wrapper of some functionality from rtracklayer package to get certain table like cytoBand, a full table schema could be found http://genome.ucsc.edu/cgi-bin/hgTables in UCSC genome browser.This is useful for visualization of the whole genome or single chromosome, you can see some examples in ggbio package.

### Value

A GRanges object.

### Author(s)

Tengfei Yin

### Examples

    ## Not run: hg19IdeogramCyto <- getIdeogram("hg19", cytoband = TRUE)

[Package biovizBase version 1.28.2 Index]