:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'hpsuissero' .. highlight: bash hpsuissero ========== .. conda:recipe:: hpsuissero :replaces_section_title: :noindex: Rapid Haemophilus parasuis serotyping pipeline for Nanopore Data :homepage: https://github.com/jimmyliu1326/HpsuisSero :license: MIT :recipe: /`hpsuissero `_/`meta.yaml `_ .. conda:package:: hpsuissero |downloads_hpsuissero| |docker_hpsuissero| :versions: ``1.0.1-0``,  ``1.0.0-1``,  ``1.0.0-0`` :depends blast: ``>=2.6`` :depends flye: ``>=2.7.1`` :depends medaka: ``1.0.1`` :requirements: :additional platforms: .. 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 hpsuissero and update with:: mamba update hpsuissero To create a new environment, run:: mamba create --name myenvname hpsuissero 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/hpsuissero: (see `hpsuissero/tags`_ for valid values for ````) .. |downloads_hpsuissero| image:: https://img.shields.io/conda/dn/bioconda/hpsuissero.svg?style=flat :target: https://anaconda.org/bioconda/hpsuissero :alt: (downloads) .. |docker_hpsuissero| image:: https://quay.io/repository/biocontainers/hpsuissero/status :target: https://quay.io/repository/biocontainers/hpsuissero .. _`hpsuissero/tags`: https://quay.io/repository/biocontainers/hpsuissero?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/hpsuissero/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/hpsuissero/README.html