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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DMRcate")
In most cases, you don't need to download the package archive at all.
DMRcate
|
This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see DMRcate.
Illumina 450K methylation array spatial analysis methods
Bioconductor version: 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 generation, GRanges generation and plotting functions.
Author: Tim Peters
Maintainer: Tim Peters <Tim.Peters at csiro.au>
Citation (from within R,
enter citation("DMRcate")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://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")
| R Script | The DMRcate package user's guide | |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | DNAMethylation, DifferentialExpression, DifferentialMethylation, GeneExpression, Genetics, GenomeAnnotation, MethylationArray, Microarray, MultipleComparison, OneChannel, QualityControl, Software, TimeCourse, TwoChannel |
| Version | 1.2.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (2 years) |
| License | file LICENSE |
| Depends | R (>= 3.1.0), limma, minfi, DMRcatedata |
| Imports | methods, graphics |
| LinkingTo | |
| Suggests | knitr, RUnit, BiocGenerics, IlluminaHumanMethylation450kanno.ilmn12.hg19, GenomicRanges |
| 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_1.2.0.tar.gz |
| Windows Binary | DMRcate_1.2.0.zip |
| Mac OS X 10.6 (Snow Leopard) | DMRcate_1.2.0.tgz |
| Mac OS X 10.9 (Mavericks) | DMRcate_1.2.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/DMRcate/tree/release-3.0 |
| Package Short Url | http://bioconductor.org/packages/DMRcate/ |
| Package Downloads Report | Download Stats |
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