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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 (3.20)

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, Junhui Li and Thomas Fazzio

Maintainer: Lihua Julie Zhu <julie.zhu at>

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


To install this package, start R (version "4.4") and enter:

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

# The following initializes usage of Bioc devel


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:

REDseq Vignette PDF R Script
Reference Manual PDF


biocViews Preprocessing, SequenceMatching, Sequencing, Software
Version 1.51.0
In Bioconductor since BioC 2.9 (R-2.14) (12.5 years)
License GPL (>=2)
Depends R (>= 3.5.0), BiocGenerics, BSgenome.Celegans.UCSC.ce2, multtest, Biostrings, BSgenome, ChIPpeakAnno
Imports AnnotationDbi, graphics, IRanges(>= 1.13.5), stats, utils
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Follow Installation instructions to use this package in your R session.

Source Package REDseq_1.51.0.tar.gz
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macOS Binary (x86_64) REDseq_1.51.0.tgz
macOS Binary (arm64) REDseq_1.51.0.tgz
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Source Repository (Developer Access) git clone
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