:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'cryptogenotyper' .. highlight: bash cryptogenotyper =============== .. conda:recipe:: cryptogenotyper :replaces_section_title: :noindex: This package crypto\_typer\: tool to subtype the parasite\, Cryptosporidium\, based on the 18S and gp60 markers. :homepage: https://github.com/phac-nml/CryptoGenotyper :license: Apache License, Version 2.0 :recipe: /`cryptogenotyper `_/`meta.yaml `_ .. conda:package:: cryptogenotyper |downloads_cryptogenotyper| |docker_cryptogenotyper| :versions: ``1.0-3``,  ``1.0-2``,  ``1.0-1``,  ``1.0-0`` :depends biopython: ``>=1.70,<1.78`` :depends blast: ``2.9.0`` :depends clustalw: ``>=2.1`` :depends numpy: ``>=1.15.4`` :depends python: ``>=3.4`` :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 cryptogenotyper and update with:: mamba update cryptogenotyper To create a new environment, run:: mamba create --name myenvname cryptogenotyper 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/cryptogenotyper: (see `cryptogenotyper/tags`_ for valid values for ````) .. |downloads_cryptogenotyper| image:: https://img.shields.io/conda/dn/bioconda/cryptogenotyper.svg?style=flat :target: https://anaconda.org/bioconda/cryptogenotyper :alt: (downloads) .. |docker_cryptogenotyper| image:: https://quay.io/repository/biocontainers/cryptogenotyper/status :target: https://quay.io/repository/biocontainers/cryptogenotyper .. _`cryptogenotyper/tags`: https://quay.io/repository/biocontainers/cryptogenotyper?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/cryptogenotyper/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/cryptogenotyper/README.html