:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-netomics' .. highlight: bash bioconductor-netomics ===================== .. conda:recipe:: bioconductor-netomics :replaces_section_title: :noindex: Multi\-Omics \(time\-course\) network\-based integration and interpretation :homepage: https://bioconductor.org/packages/3.18/bioc/html/netOmics.html :license: GPL-3 :recipe: /`bioconductor-netomics `_/`meta.yaml `_ netOmics is a multi\-omics networks builder and explorer. It uses a combination of network inference algorithms and and knowledge\-based graphs to build multi\-layered networks. The package can be combined with timeOmics to incorporate time\-course expression data and build sub\-networks from multi\-omics kinetic clusters. Finally\, from the generated multi\-omics networks\, propagation analyses allow the identification of missing biological functions \(1\)\, multi\-omics mechanisms \(2\) and molecules between kinetic clusters \(3\). This helps to resolve complex regulatory mechanisms. .. conda:package:: bioconductor-netomics |downloads_bioconductor-netomics| |docker_bioconductor-netomics| :versions: ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.0.0-0`` :depends bioconductor-annotationdbi: ``>=1.64.0,<1.65.0`` :depends bioconductor-go.db: ``>=3.18.0,<3.19.0`` :depends bioconductor-minet: ``>=3.60.0,<3.61.0`` :depends bioconductor-randomwalkrestartmh: ``>=1.22.0,<1.23.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: :depends r-ggplot2: :depends r-gprofiler2: :depends r-igraph: :depends r-magrittr: :depends r-purrr: :depends r-tibble: :depends r-tidyr: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`set-up-channels`). While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see `here `_ for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others. Given that you already have a conda environment in which you want to have this package, install with:: mamba install bioconductor-netomics and update with:: mamba update bioconductor-netomics To create a new environment, run:: mamba create --name myenvname bioconductor-netomics with ``myenvname`` being a reasonable name for the environment (see e.g. the `mamba docs `_ for details and further options). Alternatively, use the docker container:: docker pull quay.io/biocontainers/bioconductor-netomics: (see `bioconductor-netomics/tags`_ for valid values for ````) .. |downloads_bioconductor-netomics| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-netomics.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-netomics :alt: (downloads) .. |docker_bioconductor-netomics| image:: https://quay.io/repository/biocontainers/bioconductor-netomics/status :target: https://quay.io/repository/biocontainers/bioconductor-netomics .. _`bioconductor-netomics/tags`: https://quay.io/repository/biocontainers/bioconductor-netomics?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| badge with the following MarkDown:: [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-netomics/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-netomics/README.html