To install this package, start R and enter:

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

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

DMRcate

 

Illumina 450K methylation array spatial analysis methods

Bioconductor version: Release (3.1)

De novo identification and extraction of differentially methylated regions (DMRs) in the human genome using Illumina Infinium HumanMethylation450 BeadChip array data. Provides functionality for filtering probes possibly confounded by SNPs and cross-hybridisation. Includes bedGraph generation, GRanges generation and plotting functions.

Author: Tim Peters

Maintainer: Tim Peters <t.peters at garvan.org.au>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("DMRcate")

 

PDF R Script The DMRcate package user's guide
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews DNAMethylation, DifferentialExpression, DifferentialMethylation, GeneExpression, Genetics, GenomeAnnotation, MethylationArray, Microarray, MultipleComparison, OneChannel, QualityControl, Software, TimeCourse, TwoChannel
Version 1.4.2
In Bioconductor since BioC 2.14 (R-3.1) (1.5 years)
License file LICENSE
Depends R (>= 3.1.3), limma, minfi, DMRcatedata
Imports methods, graphics
LinkingTo
Suggests knitr, RUnit, BiocGenerics, IlluminaHumanMethylation450kanno.ilmn12.hg19
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source DMRcate_1.4.2.tar.gz
Windows Binary DMRcate_1.4.2.zip
Mac OS X 10.6 (Snow Leopard) DMRcate_1.4.2.tgz
Mac OS X 10.9 (Mavericks) DMRcate_1.4.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/DMRcate/tree/release-3.1
Package Short Url http://bioconductor.org/packages/DMRcate/
Package Downloads Report Download Stats

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