To install this package, start R and enter:


In most cases, you don't need to download the package archive at all.


Epigenomic tools

Bioconductor version: 2.13

Tools for the analysis of enrichment-based epigenomic data. Features include summarization and visualization of epigenomic data across promoters according to gene expression context, finding regions of differential methylation/binding, BayMeth for quantifying methylation etc.

Author: Mark Robinson <mark.robinson at>, Dario Strbenac <d.strbenac at>, Aaron Statham <a.statham at>, Andrea Riebler <andrea.riebler at>

Maintainer: Mark Robinson <mark.robinson at>

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


To install this package, start R and enter:



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



PDF qc-cpgPlot.pdf
PDF qc-enrPlot.pdf
PDF R Script Using Repitools for Epigenomic Sequencing Data
PDF visualisations-binPlotsHeatmap.pdf
PDF visualisations-binPlotsLine.pdf
PDF visualisations-cluPlots3.pdf
PDF visualisations-profPlots.pdf
PDF   Reference Manual


biocViews DNAMethylation, GeneExpression, Methylseq, Software
Version 1.8.6
In Bioconductor since BioC 2.9 (R-2.14)
License LGPL (>= 2)
Depends R (>= 3.0.0), methods, BiocGenerics(>= 0.8.0)
Imports IRanges(>= 1.20.0), GenomicRanges, BSgenome, gplots, grid, MASS, gsmoothr, edgeR(>= 3.4.0), DNAcopy, Ringo, aroma.affymetrix, Rsolnp, parallel, Biostrings, Rsamtools, cluster
Suggests ShortRead, BSgenome.Hsapiens.UCSC.hg18, rtracklayer
System Requirements
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source Repitools_1.8.6.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) Repitools_1.8.6.tgz
Browse/checkout source (username/password: readonly)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center