To install this package, start R and enter:

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

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

methyAnalysis

DNA methylation data analysis and visualization

Bioconductor version: Release (2.14)

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:

source("http://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 1.6.0
In Bioconductor since BioC 2.11 (R-2.15)
License Artistic-2.0
Depends R (>= 2.10), grid, IRanges, GenomicRanges, 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
Suggests FDb.InfiniumMethylation.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene
System Requirements
URL
Depends On Me
Imports Me
Suggests Me methylumi

Package Archives

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

Package Source methyAnalysis_1.6.0.tar.gz
Windows Binary methyAnalysis_1.6.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) methyAnalysis_1.6.0.tgz
Mac OS X 10.9 (Mavericks) methyAnalysis_1.6.0.tgz
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