cummeRbund (version 2.14.0)

csDendro: csDendro

Description

Creates a grid graphics plot of a dendrogram of Jensen-Shannon distances between conditions of a CuffFeatureSet or CuffGeneSet object.

Usage

"csDendro"(object,logMode=T,pseudocount=1,replicates=FALSE)
"csDendro"(object,logMode=T,pseudocount=1,replicates=FALSE,...)

Arguments

object

An object of class 'CuffFeatureSet' or 'CuffGeneSet'

logMode

A logical argument to log10-transform FPKM values prior to plotting.

pseudocount

Value to be added to FPKM for appropriate log transformation and clustering. (Avoids zero-based errors)

replicates

A logical value whether or not to plot individual replicates or aggregate condition values.

...

Additional arguments to csHeatmap

Value

Returns a dendrogram object and plots that object by default.

Details

None

References

None.

Examples

	data(sampleData)
	csDendro(sampleGeneSet)