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

.. title:: Package Recipe 'bakta'
.. highlight: bash

bakta
=====

.. conda:recipe:: bakta
   :replaces_section_title:
   :noindex:

   Rapid \& standardized annotation of bacterial genomes\, MAGs \& plasmids.

   :homepage: https://github.com/oschwengers/bakta
   :license: GPL / GPLv3
   :recipe: /`bakta <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bakta>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bakta/meta.yaml>`_
   :links: biotools: :biotools:`bakta`, doi: :doi:`10.1099/mgen.0.000685`, doi: :doi:`10.5281/zenodo.4247252`

   


.. conda:package:: bakta

   |downloads_bakta| |docker_bakta|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.4.2-0</code>,  <code>1.4.1-0</code>,  <code>1.4.0-1</code>,  <code>1.4.0-0</code>,  <code>1.3.3-0</code>,  <code>1.3.1-0</code>,  <code>1.3.0-0</code>,  <code>1.2.4-1</code>,  <code>1.2.4-0</code>,  </span></summary>
      

      ``1.4.2-0``,  ``1.4.1-0``,  ``1.4.0-1``,  ``1.4.0-0``,  ``1.3.3-0``,  ``1.3.1-0``,  ``1.3.0-0``,  ``1.2.4-1``,  ``1.2.4-0``,  ``1.2.3-0``,  ``1.2.2-0``,  ``1.2.1-0``,  ``1.2.0-0``,  ``1.1.1-0``,  ``1.1-0``,  ``1.0.4-0``,  ``1.0.3-0``,  ``1.0.2-0``,  ``1.0.1-0``,  ``1.0-0``,  ``0.5-0``,  ``0.4-0``,  ``0.3.2-0``,  ``0.3.1-0``,  ``0.3-0``

      
      .. raw:: html

         </details>
      

   
   :depends alive-progress: ``1.6.2``
   :depends aragorn: ``>=1.2.38``
   :depends biopython: ``>=1.78``
   :depends blast: ``>=2.12.0``
   :depends diamond: ``>=2.0.14``
   :depends hmmer: ``>=3.3.2``
   :depends infernal: ``>=1.1.4``
   :depends ncbi-amrfinderplus: ``>=3.10.23``
   :depends piler-cr: 
   :depends prodigal: ``>=2.6.3``
   :depends python: ``>=3.8``
   :depends requests: ``>=2.25.1``
   :depends trnascan-se: ``>=2.0.8``
   :depends xopen: ``>=1.1.0``
   :requirements:

   .. rubric:: Installation

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

      conda install bakta

   and update with::

      conda update bakta

   or use the docker container::

      docker pull quay.io/biocontainers/bakta:<tag>

   (see `bakta/tags`_ for valid values for ``<tag>``)


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


.. raw:: html

    <script>
        var package = "bakta";
        var versions = ["1.4.2","1.4.1","1.4.0","1.4.0","1.3.3"];
    </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/bakta/README.html