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 3.2 of Bioconductor; for the stable, up-to-date release version, see methyAnalysis.

DNA methylation data analysis and visualization

Bioconductor version: 3.2

The methyAnalysis package aims for the DNA methylation data analysis and visualization. A MethyGenoSet class is defined to keep the chromosome location information together with the data. The package also includes functions of estimating the methylation levels from Methy-Seq 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 An Introduction to the methyAnalysis package
PDF Reference Manual
Text NEWS

Details

biocViews DNAMethylation, Microarray, Software, Visualization
Version 1.12.2
In Bioconductor since BioC 2.11 (R-2.15) (3.5 years)
License Artistic-2.0
Depends R (>= 2.10), grid, BiocGenerics, IRanges, GenomeInfoDb, GenomicRanges, Biobase(>= 2.5.5), org.Hs.eg.db
Imports lumi, methylumi, Gviz, genoset, GenomicRanges, VariantAnnotation, IRanges, rtracklayer, GenomicFeatures, annotate, Biobase(>= 2.5.5), AnnotationDbi, genefilter, biomaRt, methods, parallel
LinkingTo
Suggests FDb.InfiniumMethylation.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me methylumi
Build Report

Package Archives

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

Package Source methyAnalysis_1.12.2.tar.gz
Windows Binary methyAnalysis_1.12.2.zip
Mac OS X 10.6 (Snow Leopard) methyAnalysis_1.12.0.tgz
Mac OS X 10.9 (Mavericks) methyAnalysis_1.12.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/methyAnalysis/tree/release-3.2
Package Short Url http://bioconductor.org/packages/methyAnalysis/
Package Downloads Report Download Stats

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