Package: MetaProViz
Type: Package
Title: METabolomics pre-PRocessing, functiOnal analysis and
        VIZualisation
Version: 3.99.50
Authors@R: c(
    person("Christina", "Schmidt",
           email = "christina.schmidt.science@gmail.com",
           role = c("aut", "cre", "fnd"),
           comment = c(ORCID = "0000-0002-3867-0881")),
    person("Denes", "Turei", role = "aut",
           comment = c(ORCID = "0000-0002-7249-9379")),
    person("Dimitrios", "Prymidis", role = "aut",
           comment = c(ORCID = "0009-0000-0168-3841")),
    person("Macabe", "Daley", role = "aut",
           comment = c(ORCID = "0000-0002-8026-7068")),
    person("Jannik", "Franken", role = "aut"),
    person("Julio", "Saez-Rodriguez", role = "aut",
           comment = c(ORCID = "0000-0002-8552-8976")),
    person("Christian", "Frezza", role = "aut",
           comment = c(ORCID = "0000-0002-3293-7397"))
  )
Description: MetaProViz can analyse standard metabolomics and
    exometabolomics data (CoRe). It performs pre-processing including
    feature filtering, missing value imputation, normalisation and outlier
    detection. It performs functional analysis including differential
    metabolite analysis (DMA), clustering based on regulatory rules (MCA)
    and contains different visualisation methods to extract biological
    interpretable graphs and saves them in a publication ready format.
URL: https://saezlab.github.io/MetaProViz
BugReports: https://github.com/saezlab/MetaProViz/issues
biocViews: Clustering, Metabolomics, Pathways, QualityControl,
        Software, SystemsBiology, Visualization
License: BSD_3_clause + file LICENSE
Encoding: UTF-8
VignetteBuilder: knitr
Roxygen: list(markdown = TRUE)
LazyData: false
Depends: R (>= 4.4)
Imports: broom, ComplexUpset (>= 1.3.3), cosmosR, DBI, dplyr,
        EnhancedVolcano, factoextra, ggbeeswarm, ggfortify, ggplot2 (>=
        3.3.5), ggpubr, ggrepel, grid, gridExtra, gtools, hash, igraph,
        ggraph, inflection, limma, logger, magrittr, methods, OmnipathR
        (>= 3.19.12), patchwork, pheatmap, Polychrome, purrr, qcc,
        qvalue, rappdirs, readr, rlang, rstatix, S4Vectors, stringr,
        SummarizedExperiment, tibble, tidyr, tidyselect, writexl
Suggests: BiocStyle, ggupset, ggVennDiagram, kableExtra, knitr,
        pkgdown, svglite, testthat (>= 3.1.4)
RoxygenNote: 7.3.3
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/MetaProViz
git_branch: devel
git_last_commit: 47b2175
git_last_commit_date: 2026-03-27
Repository: Bioconductor 3.23
Date/Publication: 2026-04-21
NeedsCompilation: no
Packaged: 2026-04-21 22:53:17 UTC; biocbuild
Author: Christina Schmidt [aut, cre, fnd] (ORCID:
    <https://orcid.org/0000-0002-3867-0881>),
  Denes Turei [aut] (ORCID: <https://orcid.org/0000-0002-7249-9379>),
  Dimitrios Prymidis [aut] (ORCID:
    <https://orcid.org/0009-0000-0168-3841>),
  Macabe Daley [aut] (ORCID: <https://orcid.org/0000-0002-8026-7068>),
  Jannik Franken [aut],
  Julio Saez-Rodriguez [aut] (ORCID:
    <https://orcid.org/0000-0002-8552-8976>),
  Christian Frezza [aut] (ORCID: <https://orcid.org/0000-0002-3293-7397>)
Maintainer: Christina Schmidt <christina.schmidt.science@gmail.com>
