Statistical Testing for ChIP-Seq data sets

Bioconductor version: Release (2.12)

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>

To install this package, start R and enter:


To cite this package in a publication, start R and enter:



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


biocViews ChIPseq, MultipleComparisons, Software
Version 1.0.0
In Bioconductor since BioC 2.13 (R-2.18)
License Artistic-2.0
Depends R (>= 2.14.0), GenomicRanges, parallel, DiffBind, GMD, Rsamtools
Imports GenomicRanges, IRanges
Suggests MMDiffBamSubset
System Requirements
Depends On Me
Imports Me
Suggests Me MMDiffBamSubset

Package Downloads

Package Source MMDiff_1.0.0.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) MMDiff_1.0.0.tgz
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