beadarray (version 2.22.2)

plotChipLayout: Function to Plot the Layout of an Illumina BeadChip

Description

Using the values obtained from a sentrix descriptor object generated by simpleXMLparse, a plot is generated showing samples and sections.

Usage

plotChipLayout(SD, subsC = NULL, sampC = NULL, sectC = NULL, desectC = "red", markC = "white", main = NULL, samplab = NULL, sectlab = NULL)

Arguments

SD

A sentrix descriptor object such as that generated by simpleXMLparse from an Illumina sdf file

subsC

The colour for the array substrate. Will be extracted from the sentrix descriptor object if null.

sampC

The colour for the samples. Will be extracted from the sentrix descriptor object if null.

sectC

The colour for the sections. Will be extracted from the sentrix descriptor object if null.

desectC

The colour with which to outline the decode sections

markC

The colour for plotting decoding and analytical markers

main

A title to give the figure (e.g. chip name)

samplab

labels for the samples. Will be extracted from the sentrix descriptor object if null.

sectlab

labels for the sections (if appropriate). Will be extracted from the sentrix descriptor object if null.

Value

returns a plot to the current device (recommend this is tall and thin)

Examples

## SD<-simpleXMLparse(mysdf)
## plotChipLayout(SD)