GenericArray-class: Class "GenericArray", representing array data
In GenomeGraphs: Plotting genomic information from Ensembl

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

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

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

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

Steffen Durinck

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

objects to See Also as gdPlot

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)
}