Ideogram-class {GenomeGraphs} | R Documentation

## Class "Ideogram", represent an Ideogram

### Description

An ideogram is a representation of a chromosome containing the banding pattern. Note that currently ideograms are only available for hsapiens.

### Objects from the Class

Objects can be created by calls of the form `new("Ideogram", ...)`.

### Slots

`chromosome`:

  Object of class `"character"`, representing the chromosome that needs to be drawn. E.g. 3 if chromosome 3 needs to be drawn or Y for Y chromosome.

`dp`:

  Object of class `"DisplayPars"`, can be used to specify the size (default 1) of the ideogram in the final plot and to specify the highlighting color

### Methods

No methods defined with class "Ideogram" in the signature.

### Author(s)

Steffen Durinck

### References

http://www.stat.berkeley.edu/~steffen/

### See Also

objects to See Also as `gdPlot`

### Examples

    if(interactive()){
    data("exampleData", package="GenomeGraphs")

    minbase <- 180292097
    maxbase <- 180492096
    ideog <- new("Ideogram", chromosome = "3")
    expres <- new("GenericArray", intensity = intensity, probeStart = exonProbePos,
                  dp = DisplayPars(color="darkred", type="point"))
    gdPlot(list(ideog, expres), minBase = minbase, maxBase =maxbase)
    }

[Package GenomeGraphs version 1.42.0 Index]