MEAL

This is the released version of MEAL; for the devel version, see MEAL.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2

Perform methylation analysis

Bioconductor version: Release (3.23)

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: Xavier Escribà Montagut <xavier.escriba at isglobal.org>

Citation (from within R, enter citation("MEAL")):

Carlos Ruiz-Arenas, Juan R. Gonzalez. MEAL: Perform methylation analysis. doi:10.18129/B9.bioc.MEAL, R package version 1.42.0, https://bioconductor.org/packages/MEAL.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("MEAL")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("MEAL")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DNAMethylation, Microarray, Software, WholeGenome
Version	1.42.0
In Bioconductor since	BioC 3.2 (R-3.2) (11 years)
License	Artistic-2.0
Depends	R (>= 3.6.0), Biobase, MultiDataSet
Imports	GenomicRanges, limma, vegan, BiocGenerics, minfi, IRanges, S4Vectors, methods, parallel, ggplot2 (>= 2.0.0), permute, Gviz, missMethyl, isva, SummarizedExperiment, SmartSVA, graphics, stats, utils, matrixStats
System Requirements
URL

Suggests	testthat, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylation450kanno.ilmn12.hg19, knitr, minfiData, BiocStyle, rmarkdown, brgedata
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	MEAL_1.42.0.tar.gz
Windows Binary (x86_64)	MEAL_1.42.0.zip
macOS Binary (big-sur-x86_64)	MEAL_1.42.0.tgz
macOS Binary (sonoma-arm64)	MEAL_1.42.0.tgz
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	https://bioconductor.org/packages/MEAL/
Package Downloads Report	Download Stats