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An R package to uncover high-resolution protein-DNA interactions in ChIP-exo replicates

Bioconductor version: Release (3.19)

Strand specific peak-pair calling in ChIP-exo replicates. The cumulative Skellam distribution function is used to detect significant normalised count differences of opposed sign at each DNA strand (peak-pairs). Then, irreproducible discovery rate for overlapping peak-pairs across biological replicates is computed.

Author: Pedro Madrigal [aut, cre]

Maintainer: Pedro Madrigal <pmadrigal at>

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


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

if (!require("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:

CexoR Vignette PDF R Script
Reference Manual PDF


biocViews ChIPSeq, Coverage, FunctionalGenomics, PeakDetection, Sequencing, Software
Version 1.42.0
In Bioconductor since BioC 2.13 (R-3.0) (11 years)
License Artistic-2.0 | GPL-2 + file LICENSE
Depends R (>= 4.2.0), S4Vectors, IRanges
Imports Rsamtools, GenomeInfoDb, GenomicRanges, rtracklayer, idr, RColorBrewer, genomation
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Suggests RUnit, BiocGenerics, BiocStyle, knitr, rmarkdown
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Follow Installation instructions to use this package in your R session.

Source Package CexoR_1.42.0.tar.gz
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macOS Binary (x86_64) CexoR_1.42.0.tgz
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