To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DiffBind")

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

DiffBind

   

This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see DiffBind.

Differential Binding Analysis of ChIP-Seq peak data

Bioconductor version: 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:

## try http:// if https:// URLs are not supported
source("https://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 1.12.3
In Bioconductor since BioC 2.9 (R-2.14) (4.5 years)
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, S4Vectors
LinkingTo Rsamtools
Suggests DESeq, Rsamtools, DESeq2, BiocStyle
SystemRequirements
Enhances rgl, parallel, BiocParallel
URL
Depends On Me ChIPQC, MMDiff
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source DiffBind_1.12.3.tar.gz
Windows Binary DiffBind_1.12.3.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) DiffBind_1.12.3.tgz
Mac OS X 10.9 (Mavericks) DiffBind_1.12.3.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/DiffBind/tree/release-3.0
Package Short Url http://bioconductor.org/packages/DiffBind/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Fred Hutchinson Cancer Research Center