Package: CellBarcode
Type: Package
Title: Cellular DNA Barcode Analysis toolkit
Version: 1.15.0
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
git_url: https://git.bioconductor.org/packages/CellBarcode
git_branch: devel
git_last_commit: 232852c
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
Packaged: 2025-06-04 21:57:28 UTC; biocbuild
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 4.5.0; x86_64-w64-mingw32; 2025-06-05 12:37:52 UTC; windows
Archs: x64
