:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'unifrac' .. highlight: bash unifrac ======= .. conda:recipe:: unifrac :replaces_section_title: :noindex: Fast phylogenetic diversity calculations :homepage: https://github.com/biocore/unifrac :license: BSD / BSD-3-Clause :recipe: /`unifrac `_/`meta.yaml `_ UniFrac is a commonly phylogenetic diversity distance metric used in microbiome research. The metric relates two microbiome samples together within the context of an evolutionary history\, and produces a distance that corresponds to how similar two samples by the amount of overlapping branch length. .. conda:package:: unifrac |downloads_unifrac| |docker_unifrac| :versions: .. raw:: html
1.3-01.2-01.1.1-11.1.1-01.1.0-01.0.0-11.0.0-00.20.3-00.20.2-1 ``1.3-0``,  ``1.2-0``,  ``1.1.1-1``,  ``1.1.1-0``,  ``1.1.0-0``,  ``1.0.0-1``,  ``1.0.0-0``,  ``0.20.3-0``,  ``0.20.2-1``,  ``0.20.2-0``,  ``0.20.1-0``,  ``0.20.0-1``,  ``0.20.0-0``,  ``0.10.0-1``,  ``0.10.0-0``,  ``0.9.3-1``,  ``0.9.3-0`` .. raw:: html
:depends biom-format: :depends h5py: ``<3.0.0|>3.3.0`` :depends iow: :depends libgcc-ng: ``>=12`` :depends numpy: ``>=1.24.3,<2.0a0`` :depends python: ``>=3.10,<3.11.0a0`` :depends python_abi: ``3.10.* *_cp310`` :depends scikit-bio: ``>=0.5.8`` :depends scipy: ``>=1.9.0`` :depends unifrac-binaries: ``>=1.3`` :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 unifrac and update with:: mamba update unifrac To create a new environment, run:: mamba create --name myenvname unifrac 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/unifrac: (see `unifrac/tags`_ for valid values for ````) .. |downloads_unifrac| image:: https://img.shields.io/conda/dn/bioconda/unifrac.svg?style=flat :target: https://anaconda.org/bioconda/unifrac :alt: (downloads) .. |docker_unifrac| image:: https://quay.io/repository/biocontainers/unifrac/status :target: https://quay.io/repository/biocontainers/unifrac .. _`unifrac/tags`: https://quay.io/repository/biocontainers/unifrac?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/unifrac/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/unifrac/README.html