Package: DNABarcodeCompatibility
Type: Package
Title: A Tool for Optimizing Combinations of DNA Barcodes Used in
        Multiplexed Experiments on Next Generation Sequencing Platforms
Version: 1.29.0
Maintainer: Céline Trébeau <ctrebeau@pasteur.fr>
Authors@R: c(
    person("Céline", "Trébeau", email = "ctrebeau@pasteur.fr", role = "cre", comment = c(ORCID = "0000-0001-6795-5379")),
    person("Jacques", "Boutet de Monvel", email = "jacques.boutet-de-monvel@pasteur.fr", role = "aut", comment = c(ORCID = "0000-0001-6182-3527")),
    person("Fabienne", "Wong Jun Tai", email = "virginie.wong-jun-tai@pasteur.fr", role = "ctb"),
    person("Raphaël", "Etournay", email = "raphael.etournay@pasteur.fr", role = "aut", comment = c(ORCID = "0000-0002-2441-9274")))
Description: The package allows one to obtain optimised combinations of
        DNA barcodes to be used for multiplex sequencing. In each
        barcode combination, barcodes are pooled with respect to
        Illumina chemistry constraints. Combinations can be filtered to
        keep those that are robust against substitution and
        insertion/deletion errors thereby facilitating the
        demultiplexing step. In addition, the package provides an
        optimiser function to further favor the selection of barcode
        combinations with least heterogeneity in barcode usage.
License: file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Imports: dplyr, tidyr, numbers, purrr, stringr, stats, utils, methods,
        Rcpp (>= 0.11.2), BH
LinkingTo: Rcpp, BH
Depends: R (>= 3.6.0)
Suggests: knitr, rmarkdown, BiocStyle, testthat
VignetteBuilder: knitr
biocViews: Preprocessing, Sequencing
URL: https://dnabarcodecompatibility.pasteur.fr/
BugReports: https://gitlab.pasteur.fr/ida-public/dnabarcodecompatibility/-/issues
NeedsCompilation: yes
Config/pak/sysreqs: libicu-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:49:15 UTC
RemoteUrl: https://github.com/bioc/DNABarcodeCompatibility
RemoteRef: HEAD
RemoteSha: 14bac8025e765e567584333226b9d614382be39d
Packaged: 2026-07-04 05:20:22 UTC; root
Author: Céline Trébeau [cre] (ORCID: <https://orcid.org/0000-0001-6795-5379>),
  Jacques Boutet de Monvel [aut] (ORCID:
    <https://orcid.org/0000-0001-6182-3527>),
  Fabienne Wong Jun Tai [ctb],
  Raphaël Etournay [aut] (ORCID: <https://orcid.org/0000-0002-2441-9274>)