islandDepthPlot {chipseq} | R Documentation

## 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).

### 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)

[Package chipseq version 1.32.0 Index]