volcanoplot {limma}R Documentation

Volcano Plot

Description

Creates a volcano plot of log-fold changes versus log-odds of differential expression.

Usage

volcanoplot(fit, coef=1, highlight=0, names=fit$genes$ID, ...)

Arguments

fit an MArrayLM fitted linear model object
coef integer giving the coefficient
highlight number of top genes to be highlighted
names character vector giving text labels associated with the genes and to be used in highlighting
... any other arguments are passed to plot

Details

A volcano plot is any plot which displays fold changes versus a measure of statistical significance of the change.

Value

A plot is created on the current graphics device.

Author(s)

Gordon Smyth

See Also

An overview of presentation plots following the fitting of a linear model in LIMMA is given in 06.LinearModels.

Examples

#  See lmFit examples

[Package limma version 2.4.7 Index]