To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("DiffBind")

In most cases, you don't need to download the package archive at all.

DiffBind

Differential Binding Analysis of ChIP-Seq peak data

Bioconductor version: Release (3.0)

Compute differentially bound sites from multiple ChIP-seq experiments using affinity (quantitative) data. Also enables occupancy (overlap) analysis and plotting functions.

Author: Rory Stark<rory.stark at cruk.cam.ac.uk>, Gordon Brown <gordon.brown at cruk.cam.ac.uk>

Maintainer: Rory Stark<rory.stark at cruk.cam.ac.uk>

Citation (from within R, enter citation("DiffBind")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("DiffBind")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("DiffBind")

 

PDF R Script DiffBind: Differential binding analysis of ChIP-Seq peak data
PDF   Reference Manual
Text   NEWS

Details

biocViews ChIPSeq, DifferentialPeakCalling, Sequencing, Software
Version 1.12.0
In Bioconductor since BioC 2.9 (R-2.14)
License Artistic-2.0
Depends R (>= 2.15.0), GenomicRanges, limma, GenomicAlignments
Imports RColorBrewer, amap, edgeR(>= 2.3.58), gplots, grDevices, stats, utils, IRanges, zlibbioc, lattice
Suggests DESeq, Rsamtools, DESeq2, BiocStyle
System Requirements
URL
Depends On Me ChIPQC, MMDiff
Imports Me
Suggests Me

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source DiffBind_1.12.0.tar.gz
Windows Binary DiffBind_1.12.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) DiffBind_1.12.0.tgz
Mac OS X 10.9 (Mavericks) DiffBind_1.12.0.tgz
Browse/checkout source (username/password: readonly)
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