Package: PSMatch
Title: Handling and Managing Peptide Spectrum Matches
Version: 1.14.0
Authors@R: 
   c(person(given = "Laurent", family = "Gatto",
            email = "laurent.gatto@uclouvain.be",
            role = c("aut", "cre"),
            comment = c(ORCID = "0000-0002-1520-2268")),
     person(given = "Johannes", family = "Rainer",
            email = "Johannes.Rainer@eurac.edu",
            role = "aut",
            comment = c(ORCID = "0000-0002-6977-7147")),
     person(given = "Sebastian", family = "Gibb",
            email = "mail@sebastiangibb.de",
            role = "aut",
            comment = c(ORCID = "0000-0001-7406-4443")),
     person(given = "Samuel", family = "Wieczorek",
            email = "samuel.wieczorek@cea.fr",
            role = "ctb"),
     person(given = "Thomas", family = "Burger",
            email = "thomas.burger@cea.fr",
            role = "ctb"),
     person(given = "Guillaume", family = "Deflandre",
            email = "guillaume.deflandre@uclouvain.be",
            role = "ctb",
            comment = c(ORCID = "0009-0008-1257-2416")))
Description: The PSMatch package helps proteomics practitioners to
    load, handle and manage Peptide Spectrum Matches. It provides
    functions to model peptide-protein relations as adjacency matrices
    and connected components, visualise these as graphs and make
    informed decision about shared peptide filtering. The package also
    provides functions to calculate and visualise MS2 fragment ions.
Depends: S4Vectors, R (>= 4.1.0)
Imports: utils, stats, igraph, methods, Spectra (>= 1.17.10), Matrix,
        BiocParallel, BiocGenerics, ProtGenerics (>= 1.27.1),
        QFeatures, MsCoreUtils, IRanges
Suggests: msdata, rpx, mzID, mzR, SummarizedExperiment, BiocStyle,
        rmarkdown, knitr, factoextra, vdiffr (>= 1.0.0), testthat
License: Artistic-2.0
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
VignetteBuilder: knitr
BugReports: https://github.com/RforMassSpectrometry/PSM/issues
URL: https://github.com/RforMassSpectrometry/PSM
biocViews: Infrastructure, Proteomics, MassSpectrometry
git_url: https://git.bioconductor.org/packages/PSMatch
git_branch: RELEASE_3_22
git_last_commit: eedaf3a
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.22
Date/Publication: 2025-10-29
NeedsCompilation: no
Packaged: 2025-10-30 05:00:50 UTC; biocbuild
Author: Laurent Gatto [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-1520-2268>),
  Johannes Rainer [aut] (ORCID: <https://orcid.org/0000-0002-6977-7147>),
  Sebastian Gibb [aut] (ORCID: <https://orcid.org/0000-0001-7406-4443>),
  Samuel Wieczorek [ctb],
  Thomas Burger [ctb],
  Guillaume Deflandre [ctb] (ORCID:
    <https://orcid.org/0009-0008-1257-2416>)
Maintainer: Laurent Gatto <laurent.gatto@uclouvain.be>
Built: R 4.5.1; ; 2025-10-30 12:32:16 UTC; unix
