Type: Package
Package: Holomics
Title: A User-Friendly R 'shiny' Application for Multi-Omics Data
        Integration and Analysis
Version: 1.2.0
Authors@R: c(
    person("Katharina", "Munk", email = "katharinamunk@yahoo.de", role = c("aut", "cre")),
    person("Eva M.", "Molin", role = c("aut", "ctb")),
    person("Günter", "Brader", role = "ctb"),
    person("Lisa", "Ziemba", role = "ctb"),
    person("AIT Austrian Institute of Technology GmbH", role = "cph")
  )
Description: A 'shiny' application, which allows you to perform single-
        and multi-omics analyses using your own omics datasets. After
        the upload of the omics datasets and a metadata file,
        single-omics is performed for feature selection and dataset
        reduction. These datasets are used for pairwise- and
        multi-omics analyses, where automatic tuning is done to
        identify correlations between the datasets - the end goal of
        the recommended 'Holomics' workflow. Methods used in the
        package were implemented in the package 'mixomics' by Florian
        Rohart,Benoît Gautier,Amrit Singh,Kim-Anh Lê Cao (2017)
        <doi:10.1371/journal.pcbi.1005752> and are described there in
        further detail.
License: GPL (>= 3)
URL: https://github.com/MolinLab/Holomics
BugReports: https://github.com/MolinLab/Holomics/issues
Depends: R (>= 4.0)
biocViews:
Imports: bs4Dash (>= 2.0.2), config, dplyr, DT, ggplot2, golem, igraph,
        openxlsx, readxl, shiny (>= 1.6.0), shinyalert, shinybusy,
        shinyjs, shinyvalidate, shinyWidgets, stringr, tippy,
        visNetwork, mixOmics, BiocParallel
Suggests: bookdown, knitr, rmarkdown, badger
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
RoxygenNote: 7.3.2
Config/pak/sysreqs: cmake libfreetype6-dev libglpk-dev libglu1-mesa-dev
        make texlive libicu-dev libpng-dev libuv1-dev libxml2-dev
        libgl1-mesa-dev libssl-dev zlib1g-dev
Repository: https://molinlab.r-universe.dev
Date/Publication: 2025-11-15 19:42:30 UTC
RemoteUrl: https://github.com/molinlab/holomics
RemoteRef: HEAD
RemoteSha: 24129f9210f201552ac5ff61a629f6813f11e5c7
NeedsCompilation: no
Packaged: 2026-10-11 09:18:00 UTC; root
Author: Katharina Munk [aut, cre],
  Eva M. Molin [aut, ctb],
  Günter Brader [ctb],
  Lisa Ziemba [ctb],
  AIT Austrian Institute of Technology GmbH [cph]
Maintainer: Katharina Munk <katharinamunk@yahoo.de>