:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-synergyfinder' .. highlight: bash bioconductor-synergyfinder ========================== .. conda:recipe:: bioconductor-synergyfinder :replaces_section_title: :noindex: Calculate and Visualize Synergy Scores for Drug Combinations :homepage: https://bioconductor.org/packages/3.18/bioc/html/synergyfinder.html :license: Mozilla Public License 2.0 :recipe: /`bioconductor-synergyfinder `_/`meta.yaml `_ :links: biotools: :biotools:`synergyfinder`, doi: :doi:`10.1093/bioinformatics/btx162` Efficient implementations for analyzing pre\-clinical multiple drug combination datasets. It provides efficient implementations for 1.the popular synergy scoring models\, including HSA\, Loewe\, Bliss\, and ZIP to quantify the degree of drug combination synergy\; 2. higher order drug combination data analysis and synergy landscape visualization for unlimited number of drugs in a combination\; 3. statistical analysis of drug combination synergy and sensitivity with confidence intervals and p\-values\; 4. synergy barometer for harmonizing multiple synergy scoring methods to provide a consensus metric of synergy\; 5. evaluation of synergy and sensitivity simultaneously to provide an unbiased interpretation of the clinical potential of the drug combinations. Based on this package\, we also provide a web application \(http\:\/\/www.synergyfinder.org\) for users who prefer graphical user interface. .. conda:package:: bioconductor-synergyfinder |downloads_bioconductor-synergyfinder| |docker_bioconductor-synergyfinder| :versions: .. raw:: html
3.10.0-03.8.2-03.6.0-03.2.2-03.0.3-02.4.10-02.4.0-02.2.0-02.0.1-0 ``3.10.0-0``,  ``3.8.2-0``,  ``3.6.0-0``,  ``3.2.2-0``,  ``3.0.3-0``,  ``2.4.10-0``,  ``2.4.0-0``,  ``2.2.0-0``,  ``2.0.1-0``,  ``1.10.2-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.1-0``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-0`` .. raw:: html
:depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: ``>=1.0.3`` :depends r-drc: ``>=3.0-1`` :depends r-furrr: ``>=0.2.2`` :depends r-future: ``>=1.21.0`` :depends r-ggforce: ``>=0.3.2`` :depends r-ggplot2: ``>=3.3.3`` :depends r-ggrepel: ``>=0.9.1`` :depends r-gstat: ``>=2.0-6`` :depends r-kriging: ``>=1.1`` :depends r-lattice: ``>=0.20-41`` :depends r-magrittr: ``>=2.0.1`` :depends r-metr: ``>=0.9.1`` :depends r-mice: ``>=3.13.0`` :depends r-nleqslv: ``>=3.3.2`` :depends r-pbapply: ``>=1.4-3`` :depends r-plotly: ``>=4.9.3`` :depends r-purrr: ``>=0.3.4`` :depends r-reshape2: ``>=1.4.4`` :depends r-sp: ``>=1.4-5`` :depends r-spatialextremes: ``>=2.0-9`` :depends r-stringr: ``>=1.4.0`` :depends r-tidyr: ``>=1.1.2`` :depends r-tidyverse: ``>=1.3.0`` :depends r-vegan: ``>=2.5-7`` :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-synergyfinder and update with:: mamba update bioconductor-synergyfinder To create a new environment, run:: mamba create --name myenvname bioconductor-synergyfinder 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-synergyfinder: (see `bioconductor-synergyfinder/tags`_ for valid values for ````) .. |downloads_bioconductor-synergyfinder| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-synergyfinder.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-synergyfinder :alt: (downloads) .. |docker_bioconductor-synergyfinder| image:: https://quay.io/repository/biocontainers/bioconductor-synergyfinder/status :target: https://quay.io/repository/biocontainers/bioconductor-synergyfinder .. _`bioconductor-synergyfinder/tags`: https://quay.io/repository/biocontainers/bioconductor-synergyfinder?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-synergyfinder/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-synergyfinder/README.html