DESCRIPTION

Package: RFLOMICS
Title: Interactive web application for Omics-data analysis
Version: 1.0.0
Authors@R: 
    c(
    person(given = "Nadia", family = "Bessoltane",email = "nadia.bessoltane@inrae.fr", role = c("aut", "cre"), comment = c(ORCID="0000-0001-6931-2529")),
    person(given = "Delphine", family = "Charif", email = "delphine.charif@inrae.fr", role = c("aut"), comment = c(ORCID="0000-0002-1949-5969")),
    person(given = "Audrey", family = "Hulot", email = "audrey.hulot@inrae.fr", role = c("aut"), comment = c(ORCID = "0000-0002-9647-6470")),
    person(given = "Christine", family = "Paysant-Leroux", email = "christine.paysant-le-roux@inrae.fr", role = c("aut"), comment = c(ORCID = "0000-0003-2046-6492")),
    person(given = "Gwendal", family = "Cueff", email = "gwendal.cueff@inrae.fr", role = c("aut"))
    )
Description: R-package with shiny interface, provides a framework for the analysis of transcriptomics, proteomics and/or metabolomics data. The interface offers a guided experience for the user, from the definition of the experimental design to the integration of several omics table together. A report can be generated with all settings and analysis results.
URL: https://github.com/RFLOMICS/RFLOMICS
BugReports: https://github.com/RFLOMICS/RFLOMICS/issues
Depends: 
    R (>= 4.4.0),
    SummarizedExperiment,
    MultiAssayExperiment,
    shinyBS,
    knitr
biocViews: ShinyApps, DifferentialExpression, Metabolomics, Proteomics, Transcriptomics
License: Artistic-2.0 
Encoding: UTF-8
RoxygenNote: 7.3.2
Suggests: 
    testthat,
    BiocStyle,
    org.At.tair.db,
    org.Hs.eg.db
VignetteBuilder: knitr
Imports:
    vroom,
    AnnotationDbi,
    circlize,
    clusterProfiler,
    ComplexHeatmap,
    coseq,
    data.table,
    dplyr,
    DT,
    edgeR,
    EnhancedVolcano,
    enrichplot,
    FactoMineR,
    ggplot2,
    ggpubr,
    ggrepel,
    grDevices,
    grid,
    gridExtra,
    htmltools,
    limma,
    magrittr,
    methods,
    mixOmics,
    MOFA2,
    pathview,
    png,
    purrr,
    RColorBrewer,
    reshape2,
    reticulate,
    rmarkdown,
    S4Vectors,
    shiny,
    shinydashboard,
    shinyWidgets,
    stats,
    stringr,
    tidyr,
    tibble,
    tidyselect,
    UpSetR,
    utils,
    httr