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

DOI: 10.18129/B9.bioc.methyAnalysis

DNA methylation data analysis and visualization

Bioconductor version: Release (3.5)

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>, Lei Huang <lhuang at bsd.uchicago.edu>, Gang Feng <g-feng at northwestern.edu>

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 1.18.0
In Bioconductor since BioC 2.11 (R-2.15) (5 years)
License Artistic-2.0
Depends R (>= 2.10), grid, BiocGenerics, IRanges, GenomeInfoDb, GenomicRanges, Biobase(>= 2.34.0), org.Hs.eg.db
Imports grDevices, stats, utils, lumi, methylumi, Gviz, genoset, SummarizedExperiment, IRanges, GenomicRanges, VariantAnnotation, 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.

Source Package methyAnalysis_1.18.0.tar.gz
Windows Binary methyAnalysis_1.18.0.zip
Mac OS X 10.11 (El Capitan) methyAnalysis_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/methyAnalysis
Package Short Url http://bioconductor.org/packages/methyAnalysis/
Package Downloads Report Download Stats

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