GenericArray-class {GenomeGraphs} | R Documentation

## Class "GenericArray", representing array data

### Description

The Generic Array class is a class that can be used to create plots from array data such as microarrays and arrayCGH platforms. It can represent, the data as line plots or dot plots and segments can be included as well

### Objects from the Class

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

### Slots

`intensity`:

  Object of class `"matrix"`, matrix containing the intensities of expression or cgh data. Rows should be probes, columns samples

`probeStart`:

  Object of class `"numeric"`, start position of the probes

`probeEnd`:

  Object of class `"numeric"`, end position of the probes if available

### Methods

show

  `signature(object = "GenericArray")`: ...

### 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]