Package: MutSeqRData
Title: Experimental Data for MutSeqR Examples
Version: 1.0.0
Authors@R: c(
    person("Annette E.", "Dodge",
      email = "annette.dodge@hc-sc.gc.ca",
      role = "aut",
      comment = c(ORCID = "0000-0002-0446-9055")
    ),
    person("Andrew", "Williams",
      role = "aut",
      comment = c(ORCID = "0000-0002-7637-7686")
    ),
    person("Danielle P.M.", "LeBlanc",
      role = "aut",
      comment = c(ORCID = "0000-0002-3847-8371")
    ),
    person("David M.", "Schuster",
      role = "aut",
      comment = c(ORCID = "0009-0001-6316-4358")
    ),
    person("Elena", "Esina", 
      role = "aut",
      comment = c(ORCID = "0009-0002-3443-378X")
    ),
    person("Clint C.", "Valentine", role = "aut"),
    person("Jesse J.", "Salk", role = "aut"),
    person("Alexander Y.", "Maslov", role = "aut"),
    person("Christopher", "Bradley", role = "aut"),
    person("Carole L.", "Yauk",
      role = "aut",
      comment = c(ORCID = "0000-0002-6725-3454")
    ),
    person("Francesco", "Marchetti",
      role = "aut",
      comment = c(ORCID = "0000-0002-9435-4867")
    ),    
    person("Matthew J.", "Meier",
      email = "matthew.meier@hc-sc.gc.ca",
      role = c("aut", "cre"),
      comment = c(ORCID = "0000-0001-8199-8754")
    ),
    person("Geronimo", "Matteo",
      role = "ctb",
      comment = c(ORCID = "0000-0003-0819-4471")
    )
  )
Description: Experimental data for use with the MutSeqR vignette and
        examples. This dataset is taken from LeBlanc et al., 2022. 24
        MutaMouse animals were exposed to one of three doses of
        benzo[a]pyrene or a vehicle control for 28 days by oral gavage.
        28 days after the end of the exposure, bone marrow of the
        femurs was harvested from euthanized animals. DNA extraction
        was conducted via DNeasy Blood and Tissue kit. DNA samples were
        sequenced using TwinStrand's Duplex Sequencing on the Mouse
        Mutagenesis Panel at > 10,000 depth. The Mouse Mutagenesis
        Panel comprises 20 2.4kb genomic targets with one located on
        each mouse autosome (two on chromosome 1). Pre-processing of
        sequence reads was redone since publication using an updated
        version of TwinStrand's Mutagenesis App (v. 3.20.1) which
        produced tabular mutation data files for each sample. Data
        contained herein are only those required for running MutSeqR
        examples and vignette.
License: MIT + file LICENSE
Depends: R (>= 3.5.0)
Encoding: UTF-8
biocViews: ExperimentHub, Mus_musculus_Data, Genome, Somatic,
        SequencingData
Suggests: BiocStyle, knitr, rmarkdown
RoxygenNote: 7.3.1
VignetteBuilder: knitr
BugReports: https://github.com/EHSRB-BSRSE-Bioinformatics/MutSeqRData/issues
URL: https://github.com/EHSRB-BSRSE-Bioinformatics/MutSeqRData/
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28 12:38:12 UTC
RemoteUrl: https://github.com/bioc/MutSeqRData
RemoteRef: RELEASE_3_23
RemoteSha: 5b776d05a660a2b71ebc208f8aa3a4dbcdc6a89a
NeedsCompilation: no
Packaged: 2026-10-10 11:17:39 UTC; root
Author: Annette E. Dodge [aut] (ORCID: <https://orcid.org/0000-0002-0446-9055>),
  Andrew Williams [aut] (ORCID: <https://orcid.org/0000-0002-7637-7686>),
  Danielle P.M. LeBlanc [aut] (ORCID:
    <https://orcid.org/0000-0002-3847-8371>),
  David M. Schuster [aut] (ORCID:
    <https://orcid.org/0009-0001-6316-4358>),
  Elena Esina [aut] (ORCID: <https://orcid.org/0009-0002-3443-378X>),
  Clint C. Valentine [aut],
  Jesse J. Salk [aut],
  Alexander Y. Maslov [aut],
  Christopher Bradley [aut],
  Carole L. Yauk [aut] (ORCID: <https://orcid.org/0000-0002-6725-3454>),
  Francesco Marchetti [aut] (ORCID:
    <https://orcid.org/0000-0002-9435-4867>),
  Matthew J. Meier [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-8199-8754>),
  Geronimo Matteo [ctb] (ORCID: <https://orcid.org/0000-0003-0819-4471>)
Maintainer: Matthew J. Meier <matthew.meier@hc-sc.gc.ca>