DOI: 10.18129/B9.bioc.MEAL    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see MEAL.

Perform methylation analysis

Bioconductor version: 3.8

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>

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


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HTML R Script Expression and Methylation Analysis with MEAL
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biocViews DNAMethylation, Microarray, Software, WholeGenome
Version 1.12.0
In Bioconductor since BioC 3.2 (R-3.2) (3.5 years)
License Artistic-2.0
Depends R (>= 3.2.0), Biobase, MultiDataSet
Imports GenomicRanges, limma, DMRcate, 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
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