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

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

tgsgapcloser
============

.. conda:recipe:: tgsgapcloser
   :replaces_section_title:
   :noindex:

   A gap\-closing software tool that uses error\-prone long reads generated by third\-generation\-sequence techniques \(Pacbio\, Oxford Nanopore\, etc.\) or preassembled contigs to fill N\-gap in the genome assembly.

   :homepage: https://github.com/BGI-Qingdao/TGS-GapCloser
   :license: GPL-3.0-only
   :recipe: /`tgsgapcloser <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/tgsgapcloser>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/tgsgapcloser/meta.yaml>`_

   


.. conda:package:: tgsgapcloser

   |downloads_tgsgapcloser| |docker_tgsgapcloser|

   :versions:
      
      

      ``1.2.1-1``,  ``1.2.1-0``,  ``1.0.3-2``,  ``1.0.3-1``,  ``1.0.3-0``

      

   
   :depends libgcc-ng: ``>=12``
   :depends libstdcxx-ng: ``>=12``
   :depends libzlib: ``>=1.2.13,<1.3.0a0``
   :depends minimap2: 
   :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 tgsgapcloser

   and update with::

      mamba update tgsgapcloser

  To create a new environment, run::

      mamba create --name myenvname tgsgapcloser

  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/tgsgapcloser:<tag>

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


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


.. raw:: html

    <script>
        var package = "tgsgapcloser";
        var versions = ["1.2.1","1.2.1","1.0.3","1.0.3","1.0.3"];
    </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
   :target: http://bioconda.github.io/recipes/tgsgapcloser/README.html