plotFB: FB-Plot

In limma: Linear Models for Microarray Data

Description

Creates foreground-background plots.

Usage

## S3 method for class 'RGList'
plotFB(x, array = 1, lim = "separate", pch = 16, cex = 0.3,
     xlab = "log2 Background", ylab = "log2 Foreground", main = colnames(x)[array], ...)
## S3 method for class 'EListRaw'
plotFB(x, array = 1, pch = 16, cex=0.3,
     xlab = "log2 Background", ylab = "log2 Foreground", main = colnames(x)[array], ...)

Arguments

x	an RGList or EListRaw object.
array	integer giving the array to be plotted.
lim	character string indicating whether the red and green plots should have "separate" or "common" x- and y- co-ordinate limits.
pch	vector or list of plotting characters. Defaults to integer code 16.
cex	numeric vector of plot symbol expansions.
xlab	character string, label for x-axis.
ylab	character string, label for y-axis.
main	character string, title for plot.
...	any other arguments are passed to plot.

Details

A foreground-background plot is a plot of log2-foreground vs log2-background for a particular array. For two-color arrays, this function produces a pair of plots, one for the green channel and one for the red.

See points for possible values for pch, col and cex.

Value

A plot is created on the current graphics device.

Author(s)

Gordon Smyth

See Also

An overview of diagnostic functions available in LIMMA is given in 09.Diagnostics.

limma documentation built on Nov. 8, 2020, 8:28 p.m.