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

Set of tools to make V-plots and compute footprint profiles

Bioconductor version: Development (3.20)

The pattern of digestion and protection from DNA nucleases such as DNAse I, micrococcal nuclease, and Tn5 transposase can be used to infer the location of associated proteins. This package contains useful functions to analyze patterns of paired-end sequencing fragment density. VplotR facilitates the generation of V-plots and footprint profiles over single or aggregated genomic loci of interest.

Author: Jacques Serizay [aut, cre]

Maintainer: Jacques Serizay <jacquesserizay at>

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


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:

VplotR HTML R Script
Reference Manual PDF


biocViews ATACSeq, Alignment, BiologicalQuestion, Coverage, NucleosomePositioning, Sequencing, Software
Version 1.15.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL (>= 3)
Depends R (>= 4.0), GenomicRanges, IRanges, ggplot2
Imports cowplot, magrittr, GenomeInfoDb, GenomicAlignments, RColorBrewer, zoo, Rsamtools, S4Vectors, parallel, reshape2, methods, graphics, stats
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Suggests GenomicFeatures, TxDb.Scerevisiae.UCSC.sacCer3.sgdGene, testthat, covr, knitr, rmarkdown, pkgdown
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Follow Installation instructions to use this package in your R session.

Source Package VplotR_1.15.0.tar.gz
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macOS Binary (x86_64) VplotR_1.15.0.tgz
macOS Binary (arm64) VplotR_1.15.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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