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

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

sprai
=====

.. conda:recipe:: sprai
   :replaces_section_title:
   :noindex:

   Sprai \(single\-pass read accuracy improver\) is a tool to correct sequencing errors in single\-pass reads for de novo assembly. It is originally designed for correcting sequencing errors in single\-molecule DNA sequencing reads\, especially in Continuous Long Reads \(CLRs\) generated by PacBio RS sequencers. The goal of Sprai is not maximizing the accuracy of error\-corrected reads\; instead\, Sprai aims at maximizing the continuity \(i.e.\, N50 contig length\) of assembled contigs after error correction.

   :homepage: http://zombie.cb.k.u-tokyo.ac.jp/sprai/
   :license: MIT License
   :recipe: /`sprai <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/sprai>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/sprai/meta.yaml>`_

   


.. conda:package:: sprai

   |downloads_sprai| |docker_sprai|

   :versions:
      
      

      ``0.9.9.23-0``

      

   
   :depends blast: 
   :depends libgcc: 
   :depends perl: ``5.22.0*``
   :depends perl-app-cpanminus: 
   :depends perl-module-build: 
   :depends python: ``2.7*``
   :depends wgs-assembler: 
   :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 sprai

   and update with::

      mamba update sprai

  To create a new environment, run::

      mamba create --name myenvname sprai

  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/sprai:<tag>

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


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


.. raw:: html

    <script>
        var package = "sprai";
        var versions = ["0.9.9.23"];
    </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/sprai/README.html