Package: MetaboDynamics
Title: Bayesian analysis of longitudinal metabolomics data
Version: 2.0.0
Authors@R: 
  c(person(given="Katja",family= "Danielzik", email="katja.danielzik@uni-due.de", 
           role = c("aut", "cre"),
           comment=c(ORCID="0009-0007-5021-6212")),
    person(given="Simo",family="Kitanovski",role="ctb",
           comment=c(ORCID="0000-0003-2909-5376")),
    person(given="Johann",family="Matschke",role="ctb",
           comment=c(ORCID="0000-0003-4878-8741")),
    person(given="Daniel",family="Hoffmann",role="ctb",
           comment=c(ORCID="0000-0003-2973-7869")))
URL: https://github.com/KatjaDanielzik/MetaboDynamics
BugReports: https://github.com/KatjaDanielzik/MetaboDynamics/issues
Description: MetaboDynamics is an R-package that provides a framework
        of probabilistic models to analyze longitudinal metabolomics
        data. It enables robust estimation of mean concentrations
        despite varying spread between timepoints and reports
        differences between timepoints as well as metabolite specific
        dynamics profiles that can be used for identifying "dynamics
        clusters" of metabolites of similar dynamics. Provides
        probabilistic over-representation analysis of KEGG functional
        modules and pathways as well as comparison between clusters of
        different experimental conditions.
License: GPL (>= 3)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Suggests: knitr, rmarkdown, BiocStyle, testthat (>= 3.0.0)
Config/testthat/edition: 3
Imports: dplyr, ggplot2, KEGGREST, methods, Rcpp (>= 0.12.0),
        RcppParallel (>= 5.0.1), rstan (>= 2.18.1), rstantools (>=
        2.4.0), S4Vectors, stringr, SummarizedExperiment, tidyr,
        dynamicTreeCut, rlang, ape, ggtree, patchwork
VignetteBuilder: knitr
Depends: R (>= 4.4.0)
LazyData: false
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0),
        RcppParallel (>= 5.0.1), rstan (>= 2.18.1), StanHeaders (>=
        2.18.0)
SystemRequirements: GNU make
biocViews:
        Software,Metabolomics,Bayesian,FunctionalPrediction,MultipleComparison,KEGG,Pathways,TimeCourse,
        Clustering
Biarch: true
Config/pak/sysreqs: libcairo2-dev libfontconfig1-dev libfreetype6-dev
        make libicu-dev libpng-dev libssl-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:34:11 UTC
RemoteUrl: https://github.com/bioc/MetaboDynamics
RemoteRef: RELEASE_3_22
RemoteSha: 5d9c43584768a38b4f985fbdb8c301512287552f
NeedsCompilation: yes
Packaged: 2025-11-11 20:57:14 UTC; root
Author: Katja Danielzik [aut, cre] (ORCID:
    <https://orcid.org/0009-0007-5021-6212>),
  Simo Kitanovski [ctb] (ORCID: <https://orcid.org/0000-0003-2909-5376>),
  Johann Matschke [ctb] (ORCID: <https://orcid.org/0000-0003-4878-8741>),
  Daniel Hoffmann [ctb] (ORCID: <https://orcid.org/0000-0003-2973-7869>)
Maintainer: Katja Danielzik <katja.danielzik@uni-due.de>
Built: R 4.5.2; x86_64-w64-mingw32; 2025-11-11 21:02:24 UTC; windows
Archs: x64
