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

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

pheniqs
=======

.. conda:recipe:: pheniqs
   :replaces_section_title:
   :noindex:

   Pheniqs is a flexible generic barcode classifier for high\-throughput next\-gen sequencing written in multi threaded C\+\+11. It caters to a wide variety of experimental designs by addressing multiple combinatorial index tags in arbitrary locations along reads. Pheniqs implements a noise and quality aware probabilistic classifier with improved accuracy over standard edit distance methods and reports classification quality in standard SAM auxiliary tags. Please not configuation syntax has slightly changed for 2.1.x version.

   :homepage: http://biosails.github.io/pheniqs
   :developer docs: https://github.com/biosails/pheniqs
   :license: GPL3
   :recipe: /`pheniqs <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/pheniqs>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/pheniqs/meta.yaml>`_

   


.. conda:package:: pheniqs

   |downloads_pheniqs| |docker_pheniqs|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>2.1.0-7</code>,  <code>2.1.0-6</code>,  <code>2.1.0-5</code>,  <code>2.1.0-4</code>,  <code>2.1.0-3</code>,  <code>2.1.0-2</code>,  <code>2.1.0-1</code>,  <code>2.1.0-0</code>,  <code>2.0.6-3</code>,  </span></summary>
      

      ``2.1.0-7``,  ``2.1.0-6``,  ``2.1.0-5``,  ``2.1.0-4``,  ``2.1.0-3``,  ``2.1.0-2``,  ``2.1.0-1``,  ``2.1.0-0``,  ``2.0.6-3``,  ``2.0.6-2``,  ``2.0.6-1``,  ``2.0.6-0``,  ``2.0.3-1``,  ``2.0.3-0``

      
      .. raw:: html

         </details>
      

   
   :depends htslib: ``>=1.17,<1.21.0a0``
   :depends libgcc-ng: ``>=12``
   :depends libstdcxx-ng: ``>=12``
   :depends libzlib: ``>=1.2.13,<1.3.0a0``
   :depends python: ``>=3.10,<3.11.0a0``
   :depends python_abi: ``3.10.* *_cp310``
   :depends rapidjson: 
   :depends zlib: 
   :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 pheniqs

   and update with::

      mamba update pheniqs

  To create a new environment, run::

      mamba create --name myenvname pheniqs

  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/pheniqs:<tag>

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


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


.. raw:: html

    <script>
        var package = "pheniqs";
        var versions = ["2.1.0","2.1.0","2.1.0","2.1.0","2.1.0"];
    </script>






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

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

Link to this page
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