plot.cher {Ringo}R Documentation

Plot identified Chers

Description

Function for plotting identified Chers (ChIP-enriched regions).

Usage

## S4 method for signature 'cher, ExpressionSet':
plot(x, dat, probeAnno, samples=NULL, extent = 1000, gff = NULL, ...)

Arguments

x object of class cher
dat data object of class ExpressionSet that was used for function findChersOnSmoothed
probeAnno object of class probeAnno holding the reporter/probe to genome mappings
samples which samples to plot, either a numeric vector of entries in 1 to ncol(dat), or character vector with entries in sampleNames(dat) or NULL meaning plot the levels from all samples in the ExpressionSet
extent integer; how many base pairs to the left and right should the plotted genomic region be extended
gff data frame with gene/transcript annotation
... further arguments passed on to function chipAlongChrom

Value

called for generating the plot; invisible(NULL)

Author(s)

Joern Toedling

See Also

chipAlongChrom, cher-class


[Package Ringo version 1.6.0 Index]