methyAnalysis

DNA methylation data analysis and visualization

Bioconductor version: Release (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>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("methyAnalysis")

Documentation

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-2.16)
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
Suggests	IlluminaHumanMethylation450k.db, TxDb.Hsapiens.UCSC.hg19.knownGene
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source	methyAnalysis_1.2.0.tar.gz
Windows Binary	methyAnalysis_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	methyAnalysis_1.2.0.tgz
Package Downloads Report	Download Stats

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