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

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

busco
=====

.. conda:recipe:: busco
   :replaces_section_title:
   :noindex:

   Assessment of assembly completeness using Universal Single Copy Orthologs

   :homepage: https://busco.ezlab.org/
   :developer docs: https://gitlab.com/ezlab/busco
   :license: MIT / MIT
   :recipe: /`busco <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/busco>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/busco/meta.yaml>`_
   :links: biotools: :biotools:`busco`, doi: :doi:`10.1093/bioinformatics/btv351`, usegalaxy-eu: :usegalaxy-eu:`busco`

   BUSCO provides measures for quantitative assessment of genome assembly\, gene set\, and transcriptome completeness based on evolutionarily informed expectations of gene content from near\-universal single\-copy orthologs selected from OrthoDB.


.. conda:package:: busco

   |downloads_busco| |docker_busco|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>5.7.1-0</code>,  <code>5.7.0-1</code>,  <code>5.7.0-0</code>,  <code>5.6.1-0</code>,  <code>5.6.0-0</code>,  <code>5.5.0-0</code>,  <code>5.4.7-0</code>,  <code>5.4.6-0</code>,  <code>5.4.5-0</code>,  </span></summary>
      

      ``5.7.1-0``,  ``5.7.0-1``,  ``5.7.0-0``,  ``5.6.1-0``,  ``5.6.0-0``,  ``5.5.0-0``,  ``5.4.7-0``,  ``5.4.6-0``,  ``5.4.5-0``,  ``5.4.4-0``,  ``5.4.3-0``,  ``5.4.2-0``,  ``5.4.1-0``,  ``5.4.0-2``,  ``5.4.0-1``,  ``5.4.0-0``,  ``5.3.2-0``,  ``5.3.1-0``,  ``5.3.0-0``,  ``5.2.2-0``,  ``5.2.1-0``,  ``5.2.0-0``,  ``5.1.3-0``,  ``5.1.2-0``,  ``5.1.1-1``,  ``5.1.1-0``,  ``5.1.0-1``,  ``5.1.0-0``,  ``5.0.0-1``,  ``5.0.0-0``,  ``4.1.4-2``,  ``4.1.4-1``,  ``4.1.4-0``,  ``4.1.3-0``,  ``4.1.2-3``,  ``4.1.2-2``,  ``4.1.2-1``,  ``4.1.2-0``,  ``4.1.1-0``,  ``4.0.6-0``,  ``4.0.5-0``,  ``4.0.4-1``,  ``4.0.4-0``,  ``4.0.2-0``,  ``4.0.1-0``,  ``4.0.0-0``,  ``4.0.beta1-0``,  ``3.0.2-13``,  ``3.0.2-12``,  ``3.0.2-11``,  ``3.0.2-10``,  ``3.0.2-9``,  ``3.0.2-8``,  ``3.0.2-7``,  ``3.0.2-6``,  ``3.0.2-5``,  ``3.0.2-4``,  ``3.0.1-0``,  ``2.0.1-0``,  ``2.0-0``,  ``1.2-1``,  ``1.2-0``

      
      .. raw:: html

         </details>
      

   
   :depends augustus: ``>=3.3``
   :depends bbmap: 
   :depends biopython: ``>=1.79``
   :depends blast: ``>=2.10.1``
   :depends dendropy: ``<4.6.0``
   :depends fonts-conda-ecosystem: 
   :depends hmmer: ``>=3.1b2``
   :depends metaeuk: ``>=6.a5d39d9``
   :depends miniprot: 
   :depends pandas: 
   :depends prodigal: 
   :depends python: ``>=3.3``
   :depends r-base: 
   :depends r-ggplot2: ``>=2.2.1``
   :depends requests: 
   :depends sepp: ``>=4.3.10``
   :depends wget: 
   :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 busco

   and update with::

      mamba update busco

  To create a new environment, run::

      mamba create --name myenvname busco

  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/busco:<tag>

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


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


.. raw:: html

    <script>
        var package = "busco";
        var versions = ["5.7.1","5.7.0","5.7.0","5.6.1","5.6.0"];
    </script>






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

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

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

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