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

Differential Binding Analysis of ChIP-Seq peak data

Bioconductor version: Release (3.4)

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

Details

biocViews	ChIPSeq, DifferentialPeakCalling, Sequencing, Software
Version	2.2.12
In Bioconductor since	BioC 2.9 (R-2.14) (5.5 years)
License	Artistic-2.0
Depends	R (>= 3.3.0), GenomicRanges, SummarizedExperiment
Imports	RColorBrewer, amap, edgeR, gplots, grDevices, limma, GenomicAlignments, locfit, stats, utils, IRanges, zlibbioc, lattice, systemPipeR, tools, Rcpp, dplyr, BiocParallel, parallel, S4Vectors, Rsamtools, DESeq2, methods
LinkingTo	Rsamtools(>= 1.19.38), Rcpp
Suggests	DESeq, BiocStyle, testthat
SystemRequirements
Enhances	rgl, XLConnect
URL
Depends On Me	ChIPQC
Imports Me
Suggests Me
Build Report

Package Archives

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

Package Source	DiffBind_2.2.12.tar.gz
Windows Binary	DiffBind_2.2.12.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks)	DiffBind_2.2.12.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/DiffBind/tree/release-3.4
Package Short Url	http://bioconductor.org/packages/DiffBind/
Package Downloads Report	Download Stats

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