DBFpeaks: differential binding analysis

In jianhong/diffPeaks: Quantifying Differential Features

Description

use DBF to test differential peaks

Usage

DBFpeaks(counts, ...)

Arguments

counts	output of countTable
...	parameters could be passed to DESeqDataSet

Value

an list of GRanges

Author(s)

Jianhong Ou

Examples

path <- system.file("extdata", package = "diffPeaks", mustWork = TRUE)
bamfiles <- dir(path, "bam$")
peaks <- dir(path, "bed$")
p <- mergePeaks(file.path(path, peaks))
colData <- DataFrame(samples=bamfiles, condition=sub(".rep..bam", "", bamfiles))
cnt <- countTable(p, file.path(path, bamfiles), colData)
DBFpeaks(cnt, design= ~condition)

jianhong/diffPeaks documentation built on May 22, 2019, 12:37 p.m.