islandDepthPlot: Plot island depth distribution

In chipseq: chipseq: A package for analyzing chipseq data

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).

Author(s)

D. Sarkar, M. Lawrence

See Also

peakCutoff for calculating a cutoff value for an FDR.

Examples

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

chipseq documentation built on Nov. 8, 2020, 5:19 p.m.