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

Bioconductor version: Release (2.11)

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>

To install this package, start R and enter:


To cite this package in a publication, start R and enter:



PDF R Script REDseq Vignette
PDF   Reference Manual


biocViews Preprocessing, SequenceMatching, Sequencing, Software
Version 1.4.0
In Bioconductor since BioC 2.9 (R-2.14)
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
System Requirements
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source REDseq_1.4.0.tar.gz
Windows Binary (32- & 64-bit)
MacOS 10.5 (Leopard) REDseq_1.4.0.tgz
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