To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("MMDiff")

In most cases, you don't need to download the package archive at all.

MMDiff

This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see MMDiff.

Statistical Testing for ChIP-Seq data sets

Bioconductor version: 3.0

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>

Citation (from within R, enter citation("MMDiff")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://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

Version 1.6.0
In Bioconductor since BioC 2.12 (R-3.0) (3 years)
License Artistic-2.0
Depends R (>= 2.14.0), GenomicRanges, parallel, DiffBind, GMD, Rsamtools
LinkingTo
Suggests MMDiffBamSubset
SystemRequirements
Enhances
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_1.6.0.tar.gz
Windows Binary MMDiff_1.6.0.zip
Mac OS X 10.6 (Snow Leopard) MMDiff_1.6.0.tgz
Package Downloads Report Download Stats

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