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

MMDiff

Statistical Testing for ChIP-Seq data sets

Bioconductor version: 2.13

This package detects statistically significant difference between read enrichment profiles in different ChIP-Seq samples. To take advantage of shape differences it uses Kernel methods (Maximum Mean Discrepancy, MMD).

Author: Gabriele Schweikert

Maintainer: Gabriele Schweikert <G.Schweikert at ed.ac.uk>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("MMDiff")

 

PDF	R Script	Analysing ChIP-Seq data with the "MMDiff" package
PDF		Reference Manual

Details

biocViews	ChIPseq, MultipleComparisons, Software
Version	1.2.1
In Bioconductor since	BioC 2.12 (R-3.0)
License	Artistic-2.0
Depends	R (>= 2.14.0), GenomicRanges, parallel, DiffBind, GMD, Rsamtools
Imports	GenomicRanges, IRanges, Biobase
Suggests	MMDiffBamSubset
System Requirements
URL
Depends On Me
Imports Me
Suggests Me	MMDiffBamSubset

Package Archives

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

Package Source	MMDiff_1.2.1.tar.gz
Windows Binary	MMDiff_1.2.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	MMDiff_1.2.1.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats