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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 3.4 of Bioconductor; for the stable, up-to-date release version, see methyAnalysis.
DNA methylation data analysis and visualization
Bioconductor version: 3.4
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")
| R Script | An Introduction to the methyAnalysis package | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DNAMethylation, Microarray, Software, Visualization |
| Version | 1.16.1 |
| In Bioconductor since | BioC 2.11 (R-2.15) (4.5 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.
| Package Source | methyAnalysis_1.16.1.tar.gz |
| Windows Binary | methyAnalysis_1.16.1.zip |
| Mac OS X 10.9 (Mavericks) | methyAnalysis_1.16.1.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/methyAnalysis/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/methyAnalysis/ |
| Package Downloads Report | Download Stats |
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