islandDepthPlot: Plot island depth distribution
In Bioconductor/chipseq: chipseq: A package for analyzing chipseq data
islandDepthPlot 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$ctcf, width=200))
islandDepthPlot(cov)
Bioconductor/chipseq documentation built on May 4, 2024, 4:48 p.m.
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| islandDepthPlot | R Documentation |
Plot island depth distribution
Description
Plots the distribution of island depths using points for the observed islands and a line for the Poisson estimate of the noise. Useful for choosing a depth corresponding to a desired FDR.
Usage
islandDepthPlot(x, maxDepth = 20L)
Arguments
x |
A coverage object, e.g., |
maxDepth |
The maximum depth to plot (there are usually some outliers). |
Author(s)
D. Sarkar, M. Lawrence
See Also
peakCutoff for calculating a cutoff value for an FDR.
Examples
data(cstest)
cov <- coverage(resize(cstest$ctcf, width=200))
islandDepthPlot(cov)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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