MMDiff
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 ed.ac.uk>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("MMDiff")
To cite this package in a publication, start R and enter:
citation("MMDiff")
Documentation
| R Script | Analysing ChIP-Seq data with the "MMDiff" package | |
| Reference Manual |
Details
| 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 | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | MMDiffBamSubset |
Package Downloads
| Package Source | MMDiff_1.0.0.tar.gz |
| Windows Binary | MMDiff_1.0.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | MMDiff_1.0.0.tgz |
| Package Downloads Report | Download Stats |
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