:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'pyani' .. highlight: bash pyani ===== .. conda:recipe:: pyani :replaces_section_title: :noindex: pyani provides a package and script for calculation of genome\-scale average nucleotide identity. :homepage: http://widdowquinn.github.io/pyani/ :license: MIT / MIT :recipe: /`pyani `_/`meta.yaml `_ .. conda:package:: pyani |downloads_pyani| |docker_pyani| :versions: ``0.2.12-0``,  ``0.2.11-0``,  ``0.2.10-0``,  ``0.2.9-0``,  ``0.2.7-1``,  ``0.2.7-0``,  ``0.2.3-0``,  ``0.2.0-0`` :depends biopython: :depends blast: :depends blast-legacy: :depends matplotlib-base: :depends mummer: :depends numpy: :depends pandas: :depends python: ``>3`` :depends scipy: :depends seaborn: :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 pyani and update with:: mamba update pyani To create a new environment, run:: mamba create --name myenvname pyani 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/pyani: (see `pyani/tags`_ for valid values for ````) .. |downloads_pyani| image:: https://img.shields.io/conda/dn/bioconda/pyani.svg?style=flat :target: https://anaconda.org/bioconda/pyani :alt: (downloads) .. |docker_pyani| image:: https://quay.io/repository/biocontainers/pyani/status :target: https://quay.io/repository/biocontainers/pyani .. _`pyani/tags`: https://quay.io/repository/biocontainers/pyani?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/pyani/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/pyani/README.html