plotBoundProbes {SimBindProfiles} | R Documentation

## 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

### Details

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

### Value

Coloured scatter plot

### Author(s)

Bettina Fischer

### 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)

[Package SimBindProfiles version 1.28.0 Index]