Plot identified Chers

Description

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

Usage

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

Arguments

x

object of class cher

y

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

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