plotXY {beadarray}R Documentation

XY plots for two samples

Description

Function which produces an XY plot of the intensities from two specified arrays.

Usage

plotXY(exprs,array1=1, array2=2, genesToLabel=NULL, labelCol="red", log=TRUE,labelpch=16, foldLine=2,sampleSize=NULL,...)

Arguments

exprs a matrix of expression values
array1 integer specifying the first array to plot
array2 integer specifying the second array to plot
genesToLabel vector of genes to highlight on the plot. These must match the rownames of exprs.
labelCol plotting colours for highlighted genes
log if TRUE the data will be log-transformed before plotting
labelpch plotting characters for highlighted genes
foldLine a numeric value defining where to fold change lines on the plot
sampleSize The number of genes to plot. Default is NULL, which plots every gene.
... other graphical parameters to plot that can be specified

Details

Plots the array1 intensities versus the array2 intensities for all probes.

Value

A smoothed scatter plot is displayed on the current graphical device

Author(s)

Mark Dunning

Examples

data(BSData)

plotXY(exprs(BSData), array1=1, array2=2)

[Package beadarray version 1.10.0 Index]