plotMA {edgeR}R Documentation

MA-like plot for deDGEList objects

Description

Plots

Usage

 
plotMA(object,xlab="A",ylab="M",ylim=NULL,pch=19,...)

Arguments

object deDGEList object, as output from deDGE
xlab x-axis label
ylab y-axis label
ylim limits on y-axis, if left at NULL, scaled to be symmetric about 0
pch plot character
... further arguments to the plot command

Value

A plot to the current device

Author(s)

Mark Robinson

See Also

deDGE

Examples

# generate raw data from NB, create list object
y<-matrix(rnbinom(20,size=1,mu=10),nrow=5)
d<-DGEList(data=y,group=rep(1:2,each=2),lib.size=rep(c(1000:1001),2))

# find alpha and call main procedure to find differences
alpha<-alpha.approxeb(d)
ms<-deDGE(d,alpha=alpha$alpha)

# plot it
plotMA(ms)

[Package edgeR version 1.0.4 Index]