MEDIPS

MeDIP-Seq data analysis

Bioconductor version: 2.8

MEDIPS was developed for analyzing data derived from methylated DNA immunoprecipitation (MeDIP) experiments followed by sequencing (MeDIP-Seq). Nevertheless, functionalities like the quality controls may be applied to other types of sequencing data (e.g. ChIP-Seq). MEDIPS adresses several aspects in the context of MeDIP-Seq data analysis.

Author: Lukas Chavez, Joern Dietrich

Maintainer: Lukas Chavez <chavez at molgen.mpg.de>

To install this package, start R and enter:

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

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

    citation("MEDIPS")

Documentation

PDF R Script MEDIPS
PDF   Reference Manual

Details

biocViews Sequencing, DNAMethylation, CpGIsland, DifferentialExpression, HighThroughputSequencing, ChIPseq, Preprocessing, QualityControl, Visualization
Depends R (>= 2.12.0), BSgenome
Imports Biostrings, BSgenome, graphics, gtools, IRanges, methods, stats, utils
Suggests BSgenome, BSgenome.Hsapiens.UCSC.hg19
System Requirements
License GPL (>=2)
URL
Depends On Me
Imports Me
Suggests Me
Version 1.2.0
Since Bioconductor 2.7 (R-2.12)

Package Downloads

Package Source MEDIPS_1.2.0.tar.gz
Windows Binary MEDIPS_1.2.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary MEDIPS_1.2.0.tgz
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