:orphan:  .. only available via index, not via toctree

.. title:: Package Recipe 'bioconductor-rgsepd'
.. highlight: bash

bioconductor-rgsepd
===================

.. conda:recipe:: bioconductor-rgsepd
   :replaces_section_title:
   :noindex:

   Gene Set Enrichment \/ Projection Displays

   :homepage: https://bioconductor.org/packages/3.14/bioc/html/rgsepd.html
   :license: GPL-3
   :recipe: /`bioconductor-rgsepd <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-rgsepd>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-rgsepd/meta.yaml>`_
   :links: biotools: :biotools:`rgsepd`, doi: :doi:`10.1038/nmeth.3252`

   R\/GSEPD is a bioinformatics package for R to help disambiguate transcriptome samples \(a matrix of RNA\-Seq counts at transcript IDs\) by automating differential expression \(with DESeq2\)\, then gene set enrichment \(with GOSeq\)\, and finally a N\-dimensional projection to quantify in which ways each sample is like either treatment group.


.. conda:package:: bioconductor-rgsepd

   |downloads_bioconductor-rgsepd| |docker_bioconductor-rgsepd|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.26.0-0</code>,  <code>1.24.0-0</code>,  <code>1.22.0-1</code>,  <code>1.22.0-0</code>,  <code>1.20.0-0</code>,  <code>1.18.0-0</code>,  <code>1.16.0-1</code>,  <code>1.14.0-0</code>,  <code>1.12.0-0</code>,  </span></summary>
      

      ``1.26.0-0``,  ``1.24.0-0``,  ``1.22.0-1``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-1``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-annotationdbi: ``>=1.56.0,<1.57.0``
   :depends bioconductor-biomart: ``>=2.50.0,<2.51.0``
   :depends bioconductor-deseq2: ``>=1.34.0,<1.35.0``
   :depends bioconductor-go.db: ``>=3.14.0,<3.15.0``
   :depends bioconductor-goseq: ``>=1.46.0,<1.47.0``
   :depends bioconductor-org.hs.eg.db: ``>=3.14.0,<3.15.0``
   :depends bioconductor-summarizedexperiment: ``>=1.24.0,<1.25.0``
   :depends r-base: ``>=4.1,<4.2.0a0``
   :depends r-gplots: 
   :depends r-hash: 
   :requirements:

   .. rubric:: Installation

   With an activated Bioconda channel (see :ref:`set-up-channels`), install with::

      conda install bioconductor-rgsepd

   and update with::

      conda update bioconductor-rgsepd

   or use the docker container::

      docker pull quay.io/biocontainers/bioconductor-rgsepd:<tag>

   (see `bioconductor-rgsepd/tags`_ for valid values for ``<tag>``)


.. |downloads_bioconductor-rgsepd| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-rgsepd.svg?style=flat
   :target: https://anaconda.org/bioconda/bioconductor-rgsepd
   :alt:   (downloads)
.. |docker_bioconductor-rgsepd| image:: https://quay.io/repository/biocontainers/bioconductor-rgsepd/status
   :target: https://quay.io/repository/biocontainers/bioconductor-rgsepd
.. _`bioconductor-rgsepd/tags`: https://quay.io/repository/biocontainers/bioconductor-rgsepd?tab=tags


.. raw:: html

    <script>
        var package = "bioconductor-rgsepd";
        var versions = ["1.26.0","1.24.0","1.22.0","1.22.0","1.20.0"];
    </script>






Download stats
-----------------

.. raw:: html
    :file: ../../templates/package_dashboard.html

Link to this page
-----------------

Render an |install-with-bioconda| badge with the following MarkDown::

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.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
   :target: http://bioconda.github.io/recipes/bioconductor-rgsepd/README.html