SimBindProfiles (version 1.10.0)

plotBoundProbes: Plot coloured bound probes

Description

Scatterplot of bound probes in colour based on the method.

Usage

plotBoundProbes(xSet, sgrset, method=c("pairwise" , "compensation" , "increasedBinding"),  bound.cutoff, diff.cutoff, cols=NULL, pcex=2)

Arguments

xSet

object of class ExpressionSet

sgrset

integer; specifying which data set to use from the ExpressionSet

method

a character string equal to “pairwise” , “increasedBinding” , “compensation”

bound.cutoff

numeric; threshold above probes are considered “bound”

diff.cutoff

numeric; difference threshold to determine if object 1 and object 2 are uniquely bound

cols

vector of colours to highlight probes, otherwise colours are set by default

pcex

a numerical vector giving the amount by which probe symbols should be scaled relative to the default

Value

Details

Scatterplot of the bound probes in colour based on the selected method

See Also

plot, pairwiseRegions, compensationRegions, increasedBindingRegions

Examples

  dataPath <- system.file("data",package="SimBindProfiles")
  load(file.path(dataPath,"SGR.RData"))
  plotBoundProbes(SGR, sgrset=c(1,2), method="pairwise", bound.cutoff=1.86, diff.cutoff=1.4)