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

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

bioconductor-drimseq
====================

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

   Differential transcript usage and tuQTL analyses with Dirichlet\-multinomial model in RNA\-seq

   :homepage: https://bioconductor.org/packages/3.18/bioc/html/DRIMSeq.html
   :license: GPL (>= 3)
   :recipe: /`bioconductor-drimseq <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-drimseq>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-drimseq/meta.yaml>`_
   :links: biotools: :biotools:`drimseq`

   The package provides two frameworks. One for the differential transcript usage analysis between different conditions and one for the tuQTL analysis. Both are based on modeling the counts of genomic features \(i.e.\, transcripts\) with the Dirichlet\-multinomial distribution. The package also makes available functions for visualization and exploration of the data and results.


.. conda:package:: bioconductor-drimseq

   |downloads_bioconductor-drimseq| |docker_bioconductor-drimseq|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.30.0-0</code>,  <code>1.28.0-0</code>,  <code>1.26.0-0</code>,  <code>1.22.0-0</code>,  <code>1.20.0-0</code>,  <code>1.18.0-1</code>,  <code>1.18.0-0</code>,  <code>1.16.0-0</code>,  <code>1.14.0-0</code>,  </span></summary>
      

      ``1.30.0-0``,  ``1.28.0-0``,  ``1.26.0-0``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-1``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-1``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0``
   :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0``
   :depends bioconductor-edger: ``>=4.0.0,<4.1.0``
   :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0``
   :depends bioconductor-iranges: ``>=2.36.0,<2.37.0``
   :depends bioconductor-limma: ``>=3.58.0,<3.59.0``
   :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0``
   :depends r-base: ``>=4.3,<4.4.0a0``
   :depends r-ggplot2: 
   :depends r-mass: 
   :depends r-reshape2: 
   :requirements:

   .. rubric:: Installation

  You need a conda-compatible package manager
  (currently either `micromamba <https://mamba.readthedocs.io>`_, `mamba <https://mamba.readthedocs.io>`_, or `conda <https://docs.conda.io/projects/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 <https://mamba.readthedocs.io>`_ 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-drimseq

   and update with::

      mamba update bioconductor-drimseq

  To create a new environment, run::

      mamba create --name myenvname bioconductor-drimseq

  with ``myenvname`` being a reasonable name for the environment
  (see e.g. the `mamba docs <https://mamba.readthedocs.io>`_ for details and further options).

  Alternatively, use the docker container::

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

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


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


.. raw:: html

    <script>
        var package = "bioconductor-drimseq";
        var versions = ["1.30.0","1.28.0","1.26.0","1.22.0","1.20.0"];
    </script>






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

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

Link to this page
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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
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