Package: fraq
Type: Package
Title: A High-Throughput and Extensible Toolkit for Processing FASTQ
        Data
Version: 1.0.0
Date: 2026-02-12
Authors@R: c(
    person("Travers", "Ching", email = "traversc@gmail.com", role = c("aut", "cre", "cph"),
        comment = c(ORCID = "0000-0002-5577-3516")),
    person("Yann", "Collet", role = c("ctb", "cph"),
        comment = "Author of the bundled zstd library"),
    person("Facebook, Inc.", role = "cph",
        comment = "Copyright holder of the bundled zstd code"),
    person("Reichardt", "Tino", role = c("ctb", "cph"),
        comment = "Contributor/copyright holder of bundled zstd code"),
    person("Skibinski", "Przemyslaw", role = c("ctb", "cph"),
        comment = "Contributor/copyright holder of bundled zstd code"),
    person("Mori", "Yuta", role = c("ctb", "cph"),
        comment = "Contributor/copyright holder of bundled zstd code"))
Description: High-throughput extensible toolkit for processing FASTQ data. 
    The goal of this package is to empower users to quickly build out small
    programmatic 'kernels' to define any FASTQ processing task they may need.
    Builds on Intel TBB’s flow graph to orchestrate concurrent I/O and data
    processing; throughput can be as fast as compression and disk
    speed allows. The package also ships with a suite of predefined kernels 
    for common FASTQ tasks.
License: GPL-3
biocViews: Software, Infrastructure, Sequencing, DNASeq,
        QualityControl, Alignment
URL: https://github.com/traversc/fraq
BugReports: https://github.com/traversc/fraq/issues
Depends: R (>= 4.5.0)
Imports: Rcpp, ShortRead, Biostrings, RcppParallel, edlibR, stringfish
LinkingTo: Rcpp, RcppParallel, edlibR
Suggests: knitr, rmarkdown, BiocStyle, processx
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
VignetteBuilder: knitr
SystemRequirements: GNU make
Copyright: This package includes code from the 'zstd' library created
        by Yann Collet and owned by Facebook, Inc.
git_url: https://git.bioconductor.org/packages/fraq
git_branch: RELEASE_3_23
git_last_commit: 0144746
git_last_commit_date: 2026-04-28
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28
NeedsCompilation: yes
Packaged: 2026-04-28 22:10:11 UTC; biocbuild
Author: Travers Ching [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0002-5577-3516>),
  Yann Collet [ctb, cph] (Author of the bundled zstd library),
  Facebook, Inc. [cph] (Copyright holder of the bundled zstd code),
  Reichardt Tino [ctb, cph] (Contributor/copyright holder of bundled zstd
    code),
  Skibinski Przemyslaw [ctb, cph] (Contributor/copyright holder of
    bundled zstd code),
  Mori Yuta [ctb, cph] (Contributor/copyright holder of bundled zstd
    code)
Maintainer: Travers Ching <traversc@gmail.com>
