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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 3.0 of Bioconductor; for the stable, up-to-date release version, see methyAnalysis.
DNA methylation data analysis and visualization
Bioconductor version: 3.0
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")
| R Script | An Introduction to the methyAnalysis package | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DNAMethylation, Microarray, Software, Visualization |
| Version | 1.8.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) (3.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 2.10), grid, BiocGenerics, S4Vectors, IRanges, GenomeInfoDb, 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, 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_1.8.0.tar.gz |
| Windows Binary | methyAnalysis_1.8.0.zip |
| Mac OS X 10.6 (Snow Leopard) | methyAnalysis_1.8.0.tgz |
| Mac OS X 10.9 (Mavericks) | methyAnalysis_1.8.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/methyAnalysis/tree/release-3.0 |
| Package Short Url | http://bioconductor.org/packages/methyAnalysis/ |
| Package Downloads Report | Download Stats |
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