Package: CellBarcode
Type: Package
Title: Cellular DNA Barcode Analysis toolkit
Version: 1.18.0
Authors@R: c(
  person("Wenjie", "Sun", email = "sunwjie@gmail.com", role = c("cre", "aut"), comment=c(ORCID="0000-0002-3100-2346")),
  person("Anne-Marie", "Lyne", email = "Anne-Marie.Lyne@curie.fr", role = "aut"),
  person("Leila", "Perie", email = "leila.perie@curie.fr", role = "aut")
  )
Description: The package CellBarcode performs Cellular DNA Barcode
        analysis. It can handle all kinds of DNA barcodes, as long as
        the barcode is within a single sequencing read and has a
        pattern that can be matched by a regular expression.
        \code{CellBarcode} can handle barcodes with flexible lengths,
        with or without UMI (unique molecular identifier). This tool
        also can be used for pre-processing some amplicon data such as
        CRISPR gRNA screening, immune repertoire sequencing, and
        metagenome data.
License: Artistic-2.0
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: methods, stats, Rcpp (>= 1.0.5), data.table (>= 1.12.6), plyr,
        ggplot2, stringr, magrittr, ShortRead (>= 1.48.0), Biostrings
        (>= 2.58.0), egg, Ckmeans.1d.dp, utils, S4Vectors, seqinr,
        Rsamtools
LinkingTo: Rcpp, BH
RoxygenNote: 7.3.2
Suggests: BiocStyle, testthat (>= 3.0.0), knitr, rmarkdown
biocViews: Preprocessing, QualityControl, Sequencing, CRISPR
Config/testthat/edition: 3
VignetteBuilder: knitr
NeedsCompilation: yes
URL: https://wenjie1991.github.io/CellBarcode/
BugReports: https://github.com/wenjie1991/CellBarcode/issues
Config/pak/sysreqs: libbz2-dev libicu-dev libjpeg-dev liblzma-dev
        libpng-dev xz-utils zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 12:57:27 UTC
RemoteUrl: https://github.com/bioc/CellBarcode
RemoteRef: RELEASE_3_23
RemoteSha: 18ef734c362c53e3bc4ff8c2cd883e18f207914e
Packaged: 2026-04-29 20:36:52 UTC; root
Author: Wenjie Sun [cre, aut] (ORCID: <https://orcid.org/0000-0002-3100-2346>),
  Anne-Marie Lyne [aut],
  Leila Perie [aut]
Maintainer: Wenjie Sun <sunwjie@gmail.com>
Built: R 4.6.0; x86_64-apple-darwin20; 2026-04-29 20:43:10 UTC; unix
