GenericArray-class: Class "GenericArray", representing array data

Description Objects from the Class Slots Methods Author(s) References See Also Examples

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

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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)
}


GenomeGraphs documentation built on May 20, 2017, 10:02 p.m.
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