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 3.2 of Bioconductor; for the stable, up-to-date release version, see DiffBind.

Differential Binding Analysis of ChIP-Seq peak data

Bioconductor version: 3.2

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>, Gord Brown <gdbzork at gmail.com>

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

Details

biocViews	ChIPSeq, DifferentialPeakCalling, Sequencing, Software
Version	1.16.3
In Bioconductor since	BioC 2.9 (R-2.14) (4.5 years)
License	Artistic-2.0
Depends	R (>= 3.2.2), GenomicRanges, SummarizedExperiment, limma, GenomicAlignments, locfit
Imports	RColorBrewer, amap, edgeR, gplots, grDevices, stats, utils, IRanges, zlibbioc, lattice, systemPipeR, tools
LinkingTo	Rsamtools(>= 1.19.38)
Suggests	DESeq, Rsamtools, DESeq2, BiocStyle
SystemRequirements
Enhances	rgl, parallel, BiocParallel, XLConnect
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_1.16.3.tar.gz
Windows Binary	DiffBind_1.16.3.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	DiffBind_1.16.0.tgz
Mac OS X 10.9 (Mavericks)	DiffBind_1.16.3.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/DiffBind/tree/release-3.2
Package Short Url	http://bioconductor.org/packages/DiffBind/
Package Downloads Report	Download Stats

Documentation »

Bioconductor

Package vignettes and manuals.
Workflows for learning and use.
Course and conference material.
Videos.
Community resources and tutorials.

R / CRAN packages and documentation

Support »

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

Support site - for questions about Bioconductor packages
Bioc-devel mailing list - for package developers