:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'augur' .. highlight: bash augur ===== .. conda:recipe:: augur :replaces_section_title: :noindex: Process pathogen genome data for the Nextstrain platform :homepage: https://github.com/nextstrain/augur :license: AGPL / AGPL-3.0 :recipe: /`augur `_/`meta.yaml `_ .. conda:package:: augur |downloads_augur| |docker_augur| :versions: .. raw:: html
15.0.2-015.0.1-015.0.0-014.1.0-014.0.0-013.1.2-013.1.1-013.1.0-013.0.4-0 ``15.0.2-0``,  ``15.0.1-0``,  ``15.0.0-0``,  ``14.1.0-0``,  ``14.0.0-0``,  ``13.1.2-0``,  ``13.1.1-0``,  ``13.1.0-0``,  ``13.0.4-0``,  ``13.0.3-0``,  ``13.0.2-0``,  ``13.0.1-1``,  ``13.0.1-0``,  ``13.0.0-0``,  ``12.1.1-0``,  ``12.0.0-0``,  ``11.3.0-0``,  ``11.2.0-1``,  ``11.2.0-0``,  ``11.1.2-1``,  ``11.1.2-0``,  ``11.1.0-0``,  ``11.0.0-0``,  ``10.3.0-0``,  ``10.2.0-0``,  ``10.1.1-0``,  ``10.1.0-0``,  ``10.0.4-0``,  ``10.0.3-0``,  ``10.0.2-0``,  ``10.0.0-1``,  ``10.0.0-0``,  ``9.0.0-1``,  ``9.0.0-0``,  ``8.0.0-0``,  ``7.0.2-0``,  ``6.4.3-0``,  ``6.4.2-0``,  ``6.4.1-0``,  ``6.4.0-0``,  ``6.3.0-0``,  ``6.2.0-0``,  ``6.1.1-0``,  ``6.1.0-0``,  ``6.0.0-0``,  ``5.4.1-0``,  ``5.4.0-0``,  ``5.3.0-0``,  ``5.2.1-0``,  ``5.2.0-0``,  ``5.1.1-0``,  ``5.1.0-0``,  ``4.0.0-0``,  ``3.1.5-1``,  ``3.1.5-0`` .. raw:: html
:depends bcbio-gff: ``>=0.6.0,<0.7`` :depends biopython: ``>=1.73,!=1.77,!=1.78`` :depends cvxopt: ``>=1.1.9,<2`` :depends fasttree: :depends iqtree: :depends isodate: ``>=0.6.0,<0.7`` :depends jsonschema: ``>=3.0.0,<4`` :depends mafft: :depends networkx: ``>=2.5,<3`` :depends packaging: ``>=19.2`` :depends pandas: ``>=1.0.0,<2`` :depends python: ``>=3.7`` :depends raxml: :depends treetime: ``>=0.8,<0.9`` :depends vcftools: :depends xopen: ``>=1.0.1,<2`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install augur and update with:: conda update augur or use the docker container:: docker pull quay.io/biocontainers/augur: (see `augur/tags`_ for valid values for ````) .. |downloads_augur| image:: https://img.shields.io/conda/dn/bioconda/augur.svg?style=flat :target: https://anaconda.org/bioconda/augur :alt: (downloads) .. |docker_augur| image:: https://quay.io/repository/biocontainers/augur/status :target: https://quay.io/repository/biocontainers/augur .. _`augur/tags`: https://quay.io/repository/biocontainers/augur?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/augur/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/augur/README.html