DOI: 10.18129/B9.bioc.methyAnalysis    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.13 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see methyAnalysis.

DNA methylation data analysis and visualization

Bioconductor version: Release (3.13)

The methyAnalysis package aims for the DNA methylation data analysis and visualization. A MethyGenoSet class is defined to keep the chromosome location information together with the data. The package also includes functions of estimating the methylation levels from Methy-Seq data.

Author: Pan Du, Richard Bourgon

Maintainer: Lei Huang <lhuang1998 at>

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


To install this package, start R (version "4.1") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))


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PDF R Script An Introduction to the methyAnalysis package
PDF   Reference Manual
Text   NEWS


biocViews DNAMethylation, Microarray, Software, Visualization
Version 1.34.0
In Bioconductor since BioC 2.11 (R-2.15) (9 years)
License Artistic-2.0
Depends R (>= 2.10), grid, BiocGenerics, IRanges, GenomeInfoDb(>= 1.22.0), GenomicRanges, Biobase(>= 2.34.0),
Imports grDevices, stats, utils, lumi, methylumi, Gviz, genoset, SummarizedExperiment, IRanges, GenomicRanges, VariantAnnotation, rtracklayer, bigmemoryExtras, GenomicFeatures, annotate, Biobase(>= 2.5.5), AnnotationDbi, genefilter, biomaRt, methods, parallel
Suggests FDb.InfiniumMethylation.hg19, TxDb.Hsapiens.UCSC.hg19.knownGene
Depends On Me
Imports Me
Suggests Me methylumi
Links To Me
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