VplotR
The facts below are what the maker publishes about VplotR, checked and dated. Our editors have not written about it yet.
Plans and prices
From VplotR's own pricing page, checked 12 Oct 2026.
| Plan | Price | What it gives you |
|---|---|---|
| VplotR | Free | GPL-3 licensed R package · Requires R >= 4.0 · Available from Bioconductor release > 3.12 |
The facts
Each one read from VplotR's own pages, with the date it was checked.
What it does
- Bioconductor integration
- The package is integrated with the Bioconductor environment and can be installed from Bioconductor.checked 12 Oct 2026
- Data sources
- Genomic sequencing datachecked 24 Sep 2026
- Footprints
- The plotFootprint() function generates MNase-seq or ATAC-seq footprint profiles across genomic ranges.checked 12 Oct 2026
- Fragment analyses
- The package includes functions for fragment-size distributions and paired-end fragment profiles at individual loci.checked 12 Oct 2026
- Included datasets
- The package includes example ATAC-seq datasets from C. elegans, a yeast MNase-seq dataset, and a sample BAM file.checked 12 Oct 2026
- License
- VplotR is licensed under GPL-3.checked 12 Oct 2026
- Maintainer
- Jacques Serizay is listed as the package author and maintainer.checked 12 Oct 2026
- Normalization
- V-plots support raw counts, library-depth and locus-count normalization, z-scores, and quantile scaling.checked 12 Oct 2026
- Parallel plotting
- Generation of multiple V-plots can be parallelized using a list of parameters and a cores setting.checked 12 Oct 2026
- Plotting integration
- VplotR is designed around ggplot2 so plots can be combined with other plots to create publication-ready figures.checked 12 Oct 2026
- Purpose
- VplotR is an R package for generating two-dimensional paired-end fragment density plots called V-plots.checked 12 Oct 2026
- Requirements
- VplotR requires R >= 4.0 and has been tested on Mac OS >= 10.13, Ubuntu >= 18.04, and Windows Server 2012.checked 12 Oct 2026
- Support
- The project invites bug reports and feature requests through GitHub issues and lists an email address for queries to J. Serizay.checked 12 Oct 2026
- Supported assays
- It imports paired-end sequencing BAM files from DNA accessibility experiments including ATAC-seq, DNA-seq, and MNase-seq.checked 12 Oct 2026
- V-plot generation
- The plotVmat() function computes fragment density and generates V-plots over genomic loci of interest.checked 12 Oct 2026
Money
- Free plan
- Yeschecked 24 Sep 2026
Where it runs
- Platform
- desktopchecked 24 Sep 2026
