plotSamples {BeadExplorer}R Documentation

QC sample plots

Description

Produces QC plots for each sample on the array

Usage

plotSamples(rbeadData, nbeadData, beadQC, savegraph = "png", width = 1200, height = 800, extension = "_Samples", 
col = NULL, annotation = TRUE, names = sampleNames(nbeadData), verbose = TRUE, ...)

Arguments

rbeadData UnNormalised beadData-class object
nbeadData Normalised beadData-class object
beadQC beadQC-class object
savegraph Character specfiying output graph type: "png", "bmp", "jpeg" or NULL for graph in console
width Width in pixels of output graph
height Width in height of output graph
extension Suffix to apply to analysis name to create the filename
col A vector of colours used to plot each sample in the beadData-classobject, NULL uses default: rainbow
annotation Logcial, specifying whether annotation data should be added to the plots
names Names used to represent each sample, default is sample names
verbose Logical,specifying if a commentary should be outputted
... Arguments passed to plot

Details

Produces QC plots for each sample on the array. Often where filenames are long, these can get cut-off by the plot. In this case it is better to specify- names=1:6 (or greater if the number of samples is more). See package description for more information.

Value

Nothing

Author(s)

Gareth Elvidge gareth.elvidge@well.ox.ac.uk

See Also

See Also as help

Examples

data(examplebeadData)
data(examplebeadQC)
ndata<-normalise(examplebeadData)
plotSamples(examplebeadData, ndata, examplebeadQC)

[Package BeadExplorer version 1.2.0 Index]