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MEAL

Perform methylation analysis

Bioconductor version: 3.23 · Package version: 1.42.0

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.

Installation

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

BiocManager::install("MEAL")

Details

MaintainerXavier EscribĂ  Montagut <xavier.escriba@isglobal.org>
AuthorCarlos Ruiz-Arenas [aut, cre], Juan R. Gonzalez [aut]
LicenseArtistic-2.0
Downloads rank648
Source branchRELEASE_3_23
biocViewsDNAMethylation, Microarray, Software, WholeGenome

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packageMEAL_1.42.0.tar.gz
Windows binary (x86_64)MEAL_1.42.0.zip
macOS binary (arm64)MEAL_1.42.0.tgz
macOS binary (x86_64)MEAL_1.42.0.tgz
Dependencies

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

Suggests: testthat, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylation450kanno.ilmn12.hg19, knitr, minfiData, BiocStyle, rmarkdown, brgedata