plot.peak {Ringo}R Documentation

Plot identified peaks

Description

Function for plotting identified peaks

Usage

## S3 method for class 'peak':
plot(x, dat, probeAnno, samples=NULL, extent = 1000, gff = NULL, ...)

Arguments

x object of class peak
dat data object of class ExpressionSet that was used for function findPeaksOnSmoothed
probeAnno environment holding 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

Examples

 ## Not run: 
  plot(p, smoothX, probeAnno=exProbeAnno, gff=exGFF)
 
## End(Not run)

[Package Ringo version 1.2.0 Index]