chipseq (version 1.22.0)

islandDepthPlot: Plot island depth distribution

Description

Plots the distribution of island depths using points for the observed islands and a line for the Poisson estimate of the noise. Useful for choosing a depth corresponding to a desired FDR.

Usage

islandDepthPlot(x, maxDepth = 20L)

Arguments

x

A coverage object, e.g., RleList.

maxDepth

The maximum depth to plot (there are usually some outliers).

See Also

peakCutoff for calculating a cutoff value for an FDR.

Examples

data(cstest)
cov <- coverage(resize(cstest$ctcf, width=200))
islandDepthPlot(cov)

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