DOI: 10.18129/B9.bioc.REDseq    

This is the development version of REDseq; for the stable release version, see REDseq.

Analysis of high-throughput sequencing data processed by restriction enzyme digestion

Bioconductor version: Development (3.9)

The package includes functions to build restriction enzyme cut site (RECS) map, distribute mapped sequences on the map with five different approaches, find enriched/depleted RECSs for a sample, and identify differentially enriched/depleted RECSs between samples.

Author: Lihua Julie Zhu and Thomas Fazzio

Maintainer: Lihua Julie Zhu <julie.zhu at>

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


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

if (!requireNamespace("BiocManager", quietly = TRUE))
BiocManager::install("REDseq", version = "3.9")

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 REDseq Vignette
PDF   Reference Manual


biocViews Preprocessing, SequenceMatching, Sequencing, Software
Version 1.29.0
In Bioconductor since BioC 2.9 (R-2.14) (7.5 years)
License GPL (>=2)
Depends R (>= 2.15.0), BiocGenerics(>= 0.1.0), BSgenome.Celegans.UCSC.ce2, multtest, Biostrings, BSgenome, ChIPpeakAnno
Imports BiocGenerics, AnnotationDbi, Biostrings, ChIPpeakAnno, graphics, IRanges(>= 1.13.5), multtest, stats, utils
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Follow Installation instructions to use this package in your R session.

Source Package REDseq_1.29.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) REDseq_1.29.0.tgz
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