Package: ASICS
Type: Package
Title: Automatic Statistical Identification in Complex Spectra
Version: 2.27.0
Authors@R: c(
    person("Gaëlle", "Lefort", email = "gaelle.lefort@inrae.fr", role = c("aut", "cre")),
    person("Rémi", "Servien", email = "remi.servien@inrae.fr", role = "aut"),
    person("Patrick", "Tardivel", role = "aut"),
    person("Nathalie", "Vialaneix", email = "nathalie.vialaneix@inrae.fr", role = "aut"))
Description: With a set of pure metabolite reference spectra, ASICS quantifies 
    concentration of metabolites in a complex spectrum. The identification of 
    metabolites is performed by fitting a mixture model to the spectra of the
    library with a sparse penalty. The method and its statistical properties are 
    described in Tardivel et al. (2017) <doi:10.1007/s11306-017-1244-5>. 
Depends: R (>= 3.5)
Imports:
    BiocParallel,
    ggplot2,
    glmnet,
    grDevices,
    gridExtra,
    methods,
    mvtnorm,
    PepsNMR,
    plyr,
    quadprog,
    ropls,
    stats,
    SummarizedExperiment,
    utils,
    Matrix,
    zoo
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
Suggests: knitr,
    rmarkdown,
    BiocStyle,
    testthat,
    ASICSdata
VignetteBuilder: knitr
Collate: 
    'ASICS.R'
    'Spectra-class.R'
    'ASICSResults-class.R'
    'AnalysisResults-class.R'
    'PureLibrary-class.R'
    'alignment.R'
    'analysis_on_quantification.R'
    'concentration_optimisation.R'
    'data.R'
    'library_transformation.R'
    'load_data.R'
    'plotAlignment.R'
    'plot_spectrum.R'
    'simulation.R'
    'user_guide.R'
    'utils.R'
biocViews:
    Software,
    DataImport,
    Cheminformatics,
    Metabolomics
git_url: https://git.bioconductor.org/packages/ASICS
git_branch: devel
git_last_commit: 98b3e7f
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
