:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-gsca' .. highlight: bash bioconductor-gsca ================= .. conda:recipe:: bioconductor-gsca :replaces_section_title: :noindex: GSCA\: Gene Set Context Analysis :homepage: https://bioconductor.org/packages/3.18/bioc/html/GSCA.html :license: GPL(>=2) :recipe: /`bioconductor-gsca `_/`meta.yaml `_ :links: biotools: :biotools:`gsca` GSCA takes as input several lists of activated and repressed genes. GSCA then searches through a compendium of publicly available gene expression profiles for biological contexts that are enriched with a specified pattern of gene expression. GSCA provides both traditional R functions and interactive\, user\-friendly user interface. .. conda:package:: bioconductor-gsca |downloads_bioconductor-gsca| |docker_bioconductor-gsca| :versions: .. raw:: html
2.32.0-02.30.0-02.28.0-02.24.0-02.22.0-02.20.0-12.20.0-02.17.0-02.16.0-0 ``2.32.0-0``,  ``2.30.0-0``,  ``2.28.0-0``,  ``2.24.0-0``,  ``2.22.0-0``,  ``2.20.0-1``,  ``2.20.0-0``,  ``2.17.0-0``,  ``2.16.0-0``,  ``2.14.0-1``,  ``2.14.0-0``,  ``2.12.0-1``,  ``2.12.0-0``,  ``2.10.0-0``,  ``2.8.0-0`` .. raw:: html
:depends bioconductor-rhdf5: ``>=2.46.0,<2.47.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-ggplot2: :depends r-gplots: :depends r-rcolorbrewer: :depends r-reshape2: :depends r-shiny: :depends r-sp: :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-gsca and update with:: mamba update bioconductor-gsca To create a new environment, run:: mamba create --name myenvname bioconductor-gsca 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-gsca: (see `bioconductor-gsca/tags`_ for valid values for ````) .. |downloads_bioconductor-gsca| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-gsca.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-gsca :alt: (downloads) .. |docker_bioconductor-gsca| image:: https://quay.io/repository/biocontainers/bioconductor-gsca/status :target: https://quay.io/repository/biocontainers/bioconductor-gsca .. _`bioconductor-gsca/tags`: https://quay.io/repository/biocontainers/bioconductor-gsca?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-gsca/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-gsca/README.html