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

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

datma
=====

.. conda:recipe:: datma
   :replaces_section_title:
   :noindex:

   DistributedAuTomaticMetagenomicAssembly andAnnotation framework

   :homepage: https://github.com/andvides/DATMA
   :license: GPL / GPL-3.0
   :recipe: /`datma <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/datma>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/datma/meta.yaml>`_

   


.. conda:package:: datma

   |downloads_datma| |docker_datma|

   :versions:
      
      

      ``2.0-0``,  ``1.0-0``

      

   
   :depends blast: 
   :depends bwa: 
   :depends checkm-genome: 
   :depends clame: ``1.*``
   :depends flash2: 
   :depends kaiju: 
   :depends krona: 
   :depends matplotlib-base: 
   :depends megahit: 
   :depends mergenotcombined: 
   :depends numpy: 
   :depends prodigal: 
   :depends python: 
   :depends quast: 
   :depends rapifilt: 
   :depends rdp_classifier: 
   :depends samtools: 
   :depends sdsl-lite: 
   :depends selectfasta: 
   :depends spades: 
   :depends trimmomatic: 
   :depends velvet: 
   :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 datma

   and update with::

      mamba update datma

  To create a new environment, run::

      mamba create --name myenvname datma

  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/datma:<tag>

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


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


.. raw:: html

    <script>
        var package = "datma";
        var versions = ["2.0","1.0"];
    </script>






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

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

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

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

   [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/datma/README.html)

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