MEAL

DOI: 10.18129/B9.bioc.MEAL    

Perform methylation analysis

Bioconductor version: Release (3.6)

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

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

Details

biocViews	DNAMethylation, Microarray, Software, WholeGenome
Version	1.8.0
In Bioconductor since	BioC 3.2 (R-3.2) (2.5 years)
License	Artistic-2.0
Depends	R (>= 3.2.0), Biobase, MultiDataSet
Imports	GenomicRanges, SNPassoc, limma, DMRcate, snpStats, vegan, BiocGenerics, minfi, IRanges, S4Vectors, methods, doParallel, 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
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Source Package	MEAL_1.8.0.tar.gz
Windows Binary	MEAL_1.8.0.zip
Mac OS X 10.11 (El Capitan)	MEAL_1.7.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/MEAL
Package Short Url	http://bioconductor.org/packages/MEAL/
Package Downloads Report	Download Stats