DOI: 10.18129/B9.bioc.methylPipe    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see methylPipe.

Base resolution DNA methylation data analysis

Bioconductor version: 3.10

Memory efficient analysis of base resolution DNA methylation data in both the CpG and non-CpG sequence context. Integration of DNA methylation data derived from any methodology providing base- or low-resolution data.

Author: Kamal Kishore

Maintainer: Kamal Kishore <kamal.fartiyal84 at>

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


To install this package, start R (version "3.6") and enter:

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


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


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



PDF R Script methylPipe.pdf
PDF   Reference Manual
Text   NEWS


biocViews Coverage, DNAMethylation, MethylSeq, Sequencing, Software
Version 1.20.0
In Bioconductor since BioC 3.0 (R-3.1) (5.5 years)
License GPL(>=2)
Depends R (>= 3.2.0), methods, grDevices, graphics, stats, utils, GenomicRanges, SummarizedExperiment(>= 0.2.0), Rsamtools
Imports marray, gplots, IRanges, BiocGenerics, Gviz, GenomicAlignments, Biostrings, parallel, data.table, GenomeInfoDb, S4Vectors
Suggests BSgenome.Hsapiens.UCSC.hg18, TxDb.Hsapiens.UCSC.hg18.knownGene, knitr, MethylSeekR
Depends On Me ListerEtAlBSseq
Imports Me compEpiTools
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package methylPipe_1.20.0.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.11 (El Capitan) methylPipe_1.20.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: