:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'gubbins' .. highlight: bash gubbins ======= .. conda:recipe:: gubbins :replaces_section_title: :noindex: Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins. :homepage: https://github.com/nickjcroucher/gubbins :license: GPL-2.0 :recipe: /`gubbins `_/`meta.yaml `_ .. conda:package:: gubbins |downloads_gubbins| |docker_gubbins| :versions: .. raw:: html
3.2.1-03.2.0-13.2.0-03.1.6-13.1.6-03.1.5-03.1.4-03.1.3-03.1.2-0 ``3.2.1-0``,  ``3.2.0-1``,  ``3.2.0-0``,  ``3.1.6-1``,  ``3.1.6-0``,  ``3.1.5-0``,  ``3.1.4-0``,  ``3.1.3-0``,  ``3.1.2-0``,  ``3.1.0-1``,  ``3.1.0-0``,  ``3.0.0-0``,  ``2.4.1-2``,  ``2.4.1-1``,  ``2.4.1-0``,  ``2.4.0-0``,  ``2.3.5-0``,  ``2.3.4-2``,  ``2.3.4-1``,  ``2.3.4-0``,  ``2.3.2-0``,  ``2.3.1-2``,  ``2.3.1-1``,  ``2.3.1-0``,  ``2.2.1-0`` .. raw:: html
:depends biopython: ``>=1.59`` :depends dendropy: ``>=4.0.2`` :depends fasttree: ``2.1.10.*`` :depends iqtree: ``2.0.3.*`` :depends libgcc-ng: ``>=12`` :depends libzlib: ``>=1.2.11,<1.3.0a0`` :depends multiprocess: ``>=0.70`` :depends numba: ``>=0.53`` :depends numpy: ``>=1.2`` :depends numpy: ``>=1.21.6,<2.0a0`` :depends perl: ``>=5.32.1,<5.33.0a0 *_perl5`` :depends python: ``>=3.8,<3.9.0a0`` :depends python_abi: ``3.8.* *_cp38`` :depends rapidnj: :depends raxml: ``8.2.12.*`` :depends raxml-ng: ``1.0.1.*`` :depends reportlab: ``>=3.0`` :depends scipy: ``>=1.5.3`` :depends setuptools: :depends ska: ``>=1.0`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install gubbins and update with:: conda update gubbins or use the docker container:: docker pull quay.io/biocontainers/gubbins: (see `gubbins/tags`_ for valid values for ````) .. |downloads_gubbins| image:: https://img.shields.io/conda/dn/bioconda/gubbins.svg?style=flat :target: https://anaconda.org/bioconda/gubbins :alt: (downloads) .. |docker_gubbins| image:: https://quay.io/repository/biocontainers/gubbins/status :target: https://quay.io/repository/biocontainers/gubbins .. _`gubbins/tags`: https://quay.io/repository/biocontainers/gubbins?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/gubbins/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/gubbins/README.html