csBoxplot: csBoxplot

In gofflab/cummeRbund-BioC-Bridge: Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.

Description

Creates a ggplot2 plot object with a geom_box layer displaying summary statistics for FPKM values across samples (x).

Usage

## S4 method for signature 'CuffData'
csBoxplot(object, logMode=TRUE, pseudocount=0.0001, replicates=FALSE,...)

Arguments

object	An object of class CuffData.
logMode	A logical argument to log10 -transform FPKM values.
pseudocount	Value added to FPKM to avoid log-transform issues.
replicates	A logical value whether or not to plot individual replicates or aggregate condition values.
...	Additional arguments to csBoxplot

Details

None

Value

A ggplot2 plot object with a geom_box layer.

Note

None

Author(s)

Loyal A. Goff

References

None

Examples

	a<-readCufflinks(system.file("extdata", package="cummeRbund")) #Read cufflinks data and create CuffSet object
	genes<-a@genes #CuffData object for all genes
	csBoxplot(genes)

gofflab/cummeRbund-BioC-Bridge documentation built on May 17, 2019, 7:30 a.m.