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 1.12.2
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, 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_1.12.2.tar.gz
Windows Binary DiffBind_1.12.2.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) DiffBind_1.12.2.tgz
Mac OS X 10.9 (Mavericks) DiffBind_1.12.2.tgz
Browse/checkout source (username/password: readonly)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center