MEAL

DOI: 10.18129/B9.bioc.MEAL    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see MEAL.

Perform methylation analysis

Bioconductor version: 3.7

Package to integrate methylation and expression data. It can also perform methylation or expression analysis alone. Several plotting functionalities are included as well as a new region analysis based on redundancy analysis. Effect of SNPs on a region can also be estimated.

Author: Carlos Ruiz-Arenas [aut, cre], Juan R. Gonzalez [aut]

Maintainer: Carlos Ruiz-Arenas <carlos.ruiz at isglobal.org>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("MEAL")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("MEAL")

 

HTML	R Script	Expression and Methylation Analysis with MEAL
HTML	R Script	Methylation Analysis with MEAL
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DNAMethylation, Microarray, Software, WholeGenome
Version	1.10.1
In Bioconductor since	BioC 3.2 (R-3.2) (3 years)
License	Artistic-2.0
Depends	R (>= 3.2.0), Biobase, MultiDataSet
Imports	GenomicRanges, SNPassoc, limma, DMRcate, snpStats, vegan, BiocGenerics, minfi, IRanges, S4Vectors, methods, parallel, ggplot2 (>= 2.0.0), permute, Gviz, missMethyl, isva, SummarizedExperiment, SmartSVA, graphics, stats, utils, matrixStats
LinkingTo
Suggests	testthat, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylation450kanno.ilmn12.hg19, knitr, minfiData, BiocStyle, rmarkdown, brgedata
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	MEAL_1.10.1.tar.gz
Windows Binary	MEAL_1.10.1.zip
Mac OS X 10.11 (El Capitan)
Source Repository	git clone https://git.bioconductor.org/packages/MEAL
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/MEAL
Package Short Url	http://bioconductor.org/packages/MEAL/
Package Downloads Report	Download Stats