makeExonArray {GenomeGraphs}R Documentation

Creates and object of class ExonArray

Description

Creates an object of class ExonArray, representing exon array microarray data

Usage

makeExonArray(intensity, probeStart, probeEnd, probeId, nProbes, displayProbesets = FALSE, dp = NULL)

Arguments

intensity Matrix of intentsities, probes in the rows, samples in the columns
probeStart Vector of probe start positions
probeEnd Vector of probe end positions (optional)
probeId Character vector containing the probe identifiers
nProbes Vector indicating how many probes are in each probeset
displayProbesets Logical indicating if the probeset idenifier should be displayed or not
dp Object of class DisplayPars to set the display parameters

Value

Object of ExonArray class

Author(s)

Steffen Durinck and Jim Bullard

References

~put references to the literature/web site here ~

See Also

gdPlot

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--    or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (intensity, probeStart, probeEnd, probeId, nProbes, 
    displayProbesets = FALSE, dp = NULL) 
{
    pt <- getClass("ExonArray")@prototype
    if (is.null(dp)) 
        dp <- pt@dp
    if (missing(probeEnd)) 
        probeEnd <- pt@probeEnd
    if (missing(probeId)) 
        probeId <- pt@probeId
    if (missing(nProbes)) 
        nProbes <- pt@nProbes
    if (is.null(dp)) 
        dp <- getClass("ExonArray")@prototype@dp
    new("ExonArray", intensity = intensity, probeStart = probeStart, 
        probeEnd = probeEnd, probeId = probeId, nProbes = nProbes, 
        displayProbesets = displayProbesets, dp = dp)
  }

[Package GenomeGraphs version 1.2.3 Index]