:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'ctat-metagenomics' .. highlight: bash ctat-metagenomics ================= .. conda:recipe:: ctat-metagenomics :replaces_section_title: :noindex: ctat\-metagenomics uses centrifuge :homepage: https://github.com/NCIP/ctat-metagenomics :license: BSD-3-Clause :recipe: /`ctat-metagenomics `_/`meta.yaml `_ .. conda:package:: ctat-metagenomics |downloads_ctat-metagenomics| |docker_ctat-metagenomics| :versions: ``1.0.1-4``,  ``1.0.1-3``,  ``1.0.1-2``,  ``1.0.1-1`` :depends blast: :depends centrifuge: :depends python: ``<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 ctat-metagenomics and update with:: mamba update ctat-metagenomics To create a new environment, run:: mamba create --name myenvname ctat-metagenomics 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/ctat-metagenomics: (see `ctat-metagenomics/tags`_ for valid values for ````) .. |downloads_ctat-metagenomics| image:: https://img.shields.io/conda/dn/bioconda/ctat-metagenomics.svg?style=flat :target: https://anaconda.org/bioconda/ctat-metagenomics :alt: (downloads) .. |docker_ctat-metagenomics| image:: https://quay.io/repository/biocontainers/ctat-metagenomics/status :target: https://quay.io/repository/biocontainers/ctat-metagenomics .. _`ctat-metagenomics/tags`: https://quay.io/repository/biocontainers/ctat-metagenomics?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/ctat-metagenomics/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/ctat-metagenomics/README.html