DMRcate

Illumina 450K methylation array spatial analysis methods

Bioconductor version: Development (3.0)

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 and plotting functions.

Author: Tim Peters

Maintainer: Tim Peters <Tim.Peters at csiro.au>

To install this package, start R and enter:

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

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

Documentation

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

Details

biocViews DifferentialMethylation, Preprocessing, SNP, Software
Version 1.1.4
In Bioconductor since BioC 2.14 (R-3.1)
License GPL-3
Depends R (>= 3.0.2), ks, limma, minfi, DMRcatedata
Imports methods, graphics
Suggests knitr, RUnit, BiocGenerics, IlluminaHumanMethylation450kanno.ilmn12.hg19
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source DMRcate_1.1.4.tar.gz
Windows Binary DMRcate_1.1.4.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) DMRcate_1.1.4.tgz
Mac OS X 10.9 (Mavericks) DMRcate_1.1.4.tgz
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