plotBinOverRegions: plot the coverage of regions

In jianhong/ChIPpeakAnno: Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments, or any experiments that result in large number of genomic interval data

plot the coverage of regions

Description

plot the output of binOverRegions or binOverGene

Usage

plotBinOverRegions(dat, ...)

Arguments

dat	A list of matrix which indicate the coverage of regions per bin
...	Parameters could be used by matplot

Author(s)

Jianhong Ou

See Also

binOverRegions, binOverGene

Examples

if(interactive()){
path <- system.file("extdata", package="ChIPpeakAnno")
library(TxDb.Hsapiens.UCSC.hg19.knownGene)
library(rtracklayer)
files <- dir(path, "bigWig")
if(.Platform$OS.type != "windows"){
cvglists <- lapply(file.path(path, files), import,
                   format="BigWig", as="RleList")
names(cvglists) <- sub(".bigWig", "", files)
d <- binOverGene(cvglists, TxDb.Hsapiens.UCSC.hg19.knownGene)
plotBinOverRegions(d)
}
}

jianhong/ChIPpeakAnno documentation built on Nov. 1, 2024, 8:55 a.m.