Holomics: An User-Friendly R 'shiny' Application for Multi-Omics Data Integration and Analysis

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.

Version: 1.0.0
Depends: R (≥ 4.0)
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
Published: 2023-08-21
Author: Katharina Munk [aut, cre], Eva M. Molin [aut, ctb], Günter Brader [ctb], Lisa Tucek [ctb], AIT Austrian Institute of Technology GmbH [cph]
Maintainer: Katharina Munk <katharinamunk at yahoo.de>
BugReports: https://github.com/MolinLab/Holomics/issues
License: GPL (≥ 3)
URL: https://github.com/MolinLab/Holomics
NeedsCompilation: no
Language: en-US
Citation: Holomics citation info
Materials: README NEWS
CRAN checks: Holomics results

Documentation:

Reference manual: Holomics.pdf
Vignettes: Holomics

Downloads:

Package source: Holomics_1.0.0.tar.gz
Windows binaries: r-devel: Holomics_1.0.0.zip, r-release: Holomics_1.0.0.zip, r-oldrel: Holomics_1.0.0.zip
macOS binaries: r-release (arm64): Holomics_1.0.0.tgz, r-oldrel (arm64): Holomics_1.0.0.tgz, r-release (x86_64): Holomics_1.0.0.tgz

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