Package: MsExperiment
Title: Infrastructure for Mass Spectrometry Experiments
Version: 1.13.1
Description: Infrastructure to store and manage all aspects related to
        a complete proteomics or metabolomics mass spectrometry (MS)
        experiment. The MsExperiment package provides light-weight and
        flexible containers for MS experiments building on the new MS
        infrastructure provided by the Spectra, QFeatures and related
        packages. Along with raw data representations, links to
        original data files and sample annotations, additional metadata
        or annotations can also be stored within the MsExperiment
        container. To guarantee maximum flexibility only minimal
        constraints are put on the type and content of the data within
        the containers.
Authors@R: c(person(given = "Laurent", family = "Gatto",
                    comment = c(ORCID = "0000-0002-1520-2268"),
                    email = "laurent.gatto@uclouvain.be",
                    role = c("aut", "cre")),
             person(given = "Johannes", family = "Rainer",
                    comment = c(ORCID = "0000-0002-6977-7147"),
                    email = "Johannes.Rainer@eurac.edu",
                    role = "aut"),
             person(given = "Sebastian", family = "Gibb",
                    comment = c(ORCID = "0000-0001-7406-4443"),
                    email = "mail@sebastiangibb.de",
                    role = "aut"),
             person(given = "Tuomas", family = "Borman",
                    comment = c(ORCID = "0000-0002-8563-8884"),
                    role = "ctb"))
Depends: R (>= 4.2), ProtGenerics (>= 1.35.2),
Imports: methods, S4Vectors, IRanges, Spectra, SummarizedExperiment,
        QFeatures, DBI, BiocGenerics
Suggests: testthat, knitr (>= 1.1.0), roxygen2, BiocStyle (>= 2.5.19),
        rmarkdown, rpx, mzR, MsDataHub, MsBackendSql (>= 1.3.2),
        RSQLite
License: Artistic-2.0
VignetteBuilder: knitr
BugReports: https://github.com/RforMassSpectrometry/MsExperiment/issues
URL: https://github.com/RforMassSpectrometry/MsExperiment
biocViews: Infrastructure, Proteomics, MassSpectrometry, Metabolomics,
        ExperimentalDesign, DataImport
RoxygenNote: 7.3.3
Roxygen: list(markdown=TRUE)
Encoding: UTF-8
Collate: 'MsExperiment-db.R' 'MsExperiment-functions.R'
        'MsExperimentFiles.R' 'MsExperiment.R'
        'existMsExperimentFiles.R'
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev
        libxml2-dev libssl-dev zlib1g-dev
Repository: https://rformassspectrometry.r-universe.dev
Date/Publication: 2026-02-06 13:10:54 UTC
RemoteUrl: https://github.com/rformassspectrometry/msexperiment
RemoteRef: HEAD
RemoteSha: 19ec01c78b2d24cd2a13b7cb1228eb28958eafeb
NeedsCompilation: no
Packaged: 2026-07-23 11:14:47 UTC; root
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>),
  Tuomas Borman [ctb] (ORCID: <https://orcid.org/0000-0002-8563-8884>)
Maintainer: Laurent Gatto <laurent.gatto@uclouvain.be>