Package: lcmsPlot
Type: Package
Title: Comprehensive Liquid Chromatography-Mass Spectrometry (LC-MS)
        data visualisation package
Version: 1.1.21
Authors@R: c(
    person(
        "Ossama",
        "Edbali",
        role=c("aut","cre"),
        email="o.edbali@bham.ac.uk",
        comment = c(ORCID = "0000-0003-0132-8668")),
    person(
        c("Ralf","Johannes", "Maria"),
        "Weber",
        role=c("aut"),
        email="r.j.weber@bham.ac.uk",
        comment = c(ORCID = "0000-0002-8796-4771")))
Description: lcmsPlot is an R package designed for visualising Liquid
        Chromatography-Mass Spectrometry (LC-MS) data with
        publication-ready high-quality plots. The package enables users
        to generate and customise chromatograms, mass traces, spectra,
        and more with fine-tuned aesthetics and annotation options.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 4.4.0)
Imports: methods, rlang, dplyr (>= 1.1.0), tibble, tidyr, BiocParallel,
        MSnbase, xcms, MsExperiment, mzR, Spectra, Chromatograms (>=
        1.2.0), MsCoreUtils, ProtGenerics, MsBackendMsp, S4Vectors,
        IRanges, data.table, ggplot2, scales, patchwork, DBI, RSQLite,
        jsonlite
Suggests: knitr, rmarkdown, BiocStyle, openxlsx, faahKO, rawrr,
        MsBackendRawFileReader, msPurity, ggnewscale, htmltools, shiny,
        shinytoastr, shinytest2, testthat (>= 3.0.0)
Collate: 'lcmsPlot-package.R' 'zzz.R' 'helpers-data.R' 'helpers-s4.R'
        'xcms-raw-list.R' 'raw-data.R' 'options.R' 'processing-xcms.R'
        'data-source.R' 'data-source-compound-discoverer.R'
        'data-source-mzmine.R' 'data-source-ms-dial.R'
        'data-source-compound-discoverer-node.R'
        'data-source-lipid-search.R' 'data-source-mztab.R'
        'data-validation.R' 'data-adapters.R'
        'lcmsPlotDataContainer-class.R' 'helpers-peaks.R'
        'raw-extract.R' 'dataset-chromatograms.R'
        'dataset-mass-traces.R' 'dataset-spectra.R'
        'dataset-intensity-map.R' 'dataset-total-ion-current.R'
        'dataset-rt-diff.R' 'dataset-peak-density.R'
        'dataset-peak-count-image.R' 'dataset-purity.R' 'plot-units.R'
        'plot-theme.R' 'plot-chrom-peak-rects.R' 'plot-chromatogram.R'
        'plot-mass-trace.R' 'plot-spectrum.R'
        'plot-total-ion-current.R' 'plot-intensity-map.R'
        'plot-peak-density.R' 'plot-peak-count-image.R'
        'plot-rt-diff.R' 'plot-purity.R' 'plot-variants.R' 'plot.R'
        'plot-data.R' 'lcmsPlot-class.R' 'layers-data.R'
        'layers-sources.R' 'layers-purity.R' 'layers-layout.R'
        'subset-features.R' 'app-utils.R' 'app-options.R'
        'app-module-chromatogram.R' 'app-module-peak-density.R'
        'app-module-spectra.R' 'app-module-tic.R' 'app-interface.R'
        'app-launcher.R'
VignetteBuilder: knitr
URL: https://github.com/computational-metabolomics/lcmsPlot
Roxygen: list(markdown = TRUE)
biocViews: Metabolomics, MassSpectrometry
BugReports: https://github.com/computational-metabolomics/lcmsPlot/issues
Config/testthat/edition: 3
Config/roxygen2/version: 8.1.1
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev
        libxml2-dev libnetcdf-dev libssl-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-10-26 12:06:24 UTC
RemoteUrl: https://github.com/bioc/lcmsPlot
RemoteRef: HEAD
RemoteSha: 26fe7cd3348a5da367d1833182fab05527ccb012
NeedsCompilation: no
Packaged: 2026-10-26 23:31:04 UTC; root
Author: Ossama Edbali [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-0132-8668>),
  Ralf Johannes Maria Weber [aut] (ORCID:
    <https://orcid.org/0000-0002-8796-4771>)
Maintainer: Ossama Edbali <o.edbali@bham.ac.uk>
Built: R 4.6.1; ; 2026-10-26 23:34:14 UTC; windows
