:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'prokka' .. highlight: bash prokka ====== .. conda:recipe:: prokka :replaces_section_title: :noindex: Rapid annotation of prokaryotic genomes :homepage: https://github.com/tseemann/prokka :license: GPL / GPL-3.0-only :recipe: /`prokka `_/`meta.yaml `_ :links: biotools: :biotools:`prokka`, doi: :doi:`10.1093/bioinformatics/btu153`, usegalaxy-eu: :usegalaxy-eu:`prokka` .. conda:package:: prokka |downloads_prokka| |docker_prokka| :versions: .. raw:: html
1.14.6-51.14.6-41.14.6-31.14.6-21.14.6-11.14.6-01.14.5-11.14.5-01.14.0-1 ``1.14.6-5``,  ``1.14.6-4``,  ``1.14.6-3``,  ``1.14.6-2``,  ``1.14.6-1``,  ``1.14.6-0``,  ``1.14.5-1``,  ``1.14.5-0``,  ``1.14.0-1``,  ``1.14.0-0``,  ``1.13.7-0``,  ``1.13.4-0``,  ``1.13.3-0``,  ``1.13-4``,  ``1.13-3``,  ``1.13-2``,  ``1.13-1``,  ``1.13-0``,  ``1.12-4``,  ``1.12-3``,  ``1.12-2``,  ``1.12-1``,  ``1.12-0``,  ``1.11-0`` .. raw:: html
:depends aragorn: ``>=1.2`` :depends barrnap: ``>=0.7`` :depends blast: ``>=2.7.1`` :depends hmmer: ``>=3.1b2`` :depends infernal: ``>=1.1.2`` :depends minced: ``>=0.3`` :depends parallel: ``>=20180522`` :depends perl: ``>=5.32.1,<6.0a0 *_perl5`` :depends perl-bioperl: ``>=1.7.2`` :depends perl-xml-simple: :depends prodigal: ``>=2.6`` :depends tbl2asn-forever: ``>=25.7`` :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `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 `_ 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 prokka and update with:: mamba update prokka To create a new environment, run:: mamba create --name myenvname prokka with ``myenvname`` being a reasonable name for the environment (see e.g. the `mamba docs `_ for details and further options). Alternatively, use the docker container:: docker pull quay.io/biocontainers/prokka: (see `prokka/tags`_ for valid values for ````) .. |downloads_prokka| image:: https://img.shields.io/conda/dn/bioconda/prokka.svg?style=flat :target: https://anaconda.org/bioconda/prokka :alt: (downloads) .. |docker_prokka| image:: https://quay.io/repository/biocontainers/prokka/status :target: https://quay.io/repository/biocontainers/prokka .. _`prokka/tags`: https://quay.io/repository/biocontainers/prokka?tab=tags .. raw:: html 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/prokka/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/prokka/README.html