To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("methyAnalysis")

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

methyAnalysis

   

This package is for version 2.12 of Bioconductor; for the stable, up-to-date release version, see methyAnalysis.

DNA methylation data analysis and visualization

Bioconductor version: 2.12

The methyAnalysis package aims for the DNA methylation data analysis and visualization. A new class is defined to keep the chromosome location information together with the data. The current version of the package mainly focus on analyzing the Illumina Infinium methylation array data, but most methods can be generalized to other methylation array or sequencing data.

Author: Pan Du, Richard Bourgon

Maintainer: Pan Du <dupan.mail at gmail.com>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("methyAnalysis")

Documentation

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

browseVignettes("methyAnalysis")

 

PDF R Script An Introduction to the methyAnalysis package
PDF   Reference Manual
Text   NEWS

Details

biocViews DNAMethylation, Microarray, Software, Visualization
Version 1.2.0
In Bioconductor since BioC 2.11 (R-2.15) (3.5 years)
License Artistic-2.0
Depends R (>= 2.10), grid, IRanges, Biobase(>= 2.5.5), org.Hs.eg.db
Imports lumi, methylumi, Gviz, genoset, GenomicRanges, IRanges, rtracklayer, GenomicFeatures, annotate, Biobase(>= 2.5.5), AnnotationDbi, genefilter, biomaRt, methods
LinkingTo
Suggests IlluminaHumanMethylation450k.db, TxDb.Hsapiens.UCSC.hg19.knownGene
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 methyAnalysis_1.2.0.tar.gz
Windows Binary methyAnalysis_1.2.0.zip
Mac OS X 10.6 (Snow Leopard) methyAnalysis_1.2.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/methyAnalysis/tree/release-2.12
Package Short Url http://bioconductor.org/packages/methyAnalysis/
Package Downloads Report Download Stats

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