:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'panx' .. highlight: bash panx ==== .. conda:recipe:: panx/1.5.0 :replaces_section_title: :noindex: Microbial pan\-genome analysis and exploration tool :homepage: http://pangenome.de :license: GNU General Public License v3.0 :recipe: /`panx `_/`1.5.0 `_/`meta.yaml `_ .. conda:package:: panx |downloads_panx| |docker_panx| :versions: ``1.6.0-0``,  ``1.5.0-0`` :depends biopython: :depends diamond: :depends ete2: :depends fasttree: :depends mafft: :depends mcl: :depends numpy: :depends pandas: :depends python: ``2.7*`` :depends raxml: :depends scipy: :depends treetime: :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 panx and update with:: mamba update panx To create a new environment, run:: mamba create --name myenvname panx 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/panx: (see `panx/tags`_ for valid values for ````) .. |downloads_panx| image:: https://img.shields.io/conda/dn/bioconda/panx.svg?style=flat :target: https://anaconda.org/bioconda/panx :alt: (downloads) .. |docker_panx| image:: https://quay.io/repository/biocontainers/panx/status :target: https://quay.io/repository/biocontainers/panx .. _`panx/tags`: https://quay.io/repository/biocontainers/panx?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/panx/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/panx/README.html