:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-dorothea' .. highlight: bash bioconductor-dorothea ===================== .. conda:recipe:: bioconductor-dorothea :replaces_section_title: :noindex: Collection Of Human And Mouse TF Regulons :homepage: https://bioconductor.org/packages/3.18/data/experiment/html/dorothea.html :license: GPL-3 + file LICENSE :recipe: /`bioconductor-dorothea `_/`meta.yaml `_ DoRothEA is a gene regulatory network containing signed transcription factor \(TF\) \- target gene interactions. DoRothEA regulons\, the collection of a TF and its transcriptional targets\, were curated and collected from different types of evidence for both human and mouse. A confidence level was assigned to each TF\-target interaction based on the number of supporting evidence. .. conda:package:: bioconductor-dorothea |downloads_bioconductor-dorothea| |docker_bioconductor-dorothea| :versions: ``1.14.0-0``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.6.0-1``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.2.1-0``,  ``1.2.0-0``,  ``1.0.0-0`` :depends bioconductor-bcellviper: ``>=1.38.0,<1.39.0`` :depends bioconductor-data-packages: ``>=20231203`` :depends bioconductor-decoupler: ``>=2.8.0,<2.9.0`` :depends curl: :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: :depends r-magrittr: :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-dorothea and update with:: mamba update bioconductor-dorothea To create a new environment, run:: mamba create --name myenvname bioconductor-dorothea 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-dorothea: (see `bioconductor-dorothea/tags`_ for valid values for ````) .. |downloads_bioconductor-dorothea| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-dorothea.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-dorothea :alt: (downloads) .. |docker_bioconductor-dorothea| image:: https://quay.io/repository/biocontainers/bioconductor-dorothea/status :target: https://quay.io/repository/biocontainers/bioconductor-dorothea .. _`bioconductor-dorothea/tags`: https://quay.io/repository/biocontainers/bioconductor-dorothea?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-dorothea/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-dorothea/README.html