DOI: 10.18129/B9.bioc.recountmethylation    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see recountmethylation.

Access and analyze DNA methylation database compilations

Bioconductor version: 3.14

Access cross-study compilations of DNA methylation array databases. Database files can be downloaded and accessed using provided functions. Background about database file types (HDF5 and HDF5-SummarizedExperiment), SummarizedExperiment classes, and examples for data handling, validation, and analyses, can be found in the package vignettes. Note the disclaimer on package load, and consult the main manuscript for further info.

Author: Sean K Maden [cre, aut] , Reid F Thompson [aut] , Kasper D Hansen [aut] , Abhinav Nellore [aut]

Maintainer: Sean K Maden <maden at>

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


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HTML R Script Data Analyses
HTML R Script Determine population ancestry from DNAm arrays
HTML R Script Nearest neighbors analysis for DNAm arrays
HTML R Script Power analysis for DNAm arrays
HTML R Script recountmethylation User's Guide
PDF   Reference Manual
Text   NEWS


biocViews DNAMethylation, Epigenetics, ExperimentHub, MethylationArray, Microarray, Software
Version 1.4.5
In Bioconductor since BioC 3.12 (R-4.0) (1.5 years)
License Artistic-2.0
Depends R (>= 4.1)
Imports minfi, HDF5Array, rhdf5, S4Vectors, utils, methods, RCurl, R.utils, BiocFileCache, IlluminaHumanMethylation450kmanifest
Suggests knitr, testthat, ggplot2, gridExtra, rmarkdown, BiocStyle, GenomicRanges, limma, ExperimentHub, AnnotationHub
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