:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'valet' .. highlight: bash valet ===== .. conda:recipe:: valet :replaces_section_title: :noindex: Pipeline for detecting mis\-assemblies in metagenomic assemblies :homepage: https://github.com/marbl/VALET :license: MIT :recipe: /`valet `_/`meta.yaml `_ .. conda:package:: valet |downloads_valet| |docker_valet| :versions: ``1.0-5``,  ``1.0-4``,  ``1.0-3``,  ``1.0-2``,  ``1.0-1``,  ``1.0-0`` :depends bedtools: :depends bowtie2: :depends numpy: :depends perl: :depends python: ``<3`` :depends r-base: :depends samtools: :depends scipy: :depends tbb: ``2020.2.*`` :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 valet and update with:: mamba update valet To create a new environment, run:: mamba create --name myenvname valet 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/valet: (see `valet/tags`_ for valid values for ````) .. |downloads_valet| image:: https://img.shields.io/conda/dn/bioconda/valet.svg?style=flat :target: https://anaconda.org/bioconda/valet :alt: (downloads) .. |docker_valet| image:: https://quay.io/repository/biocontainers/valet/status :target: https://quay.io/repository/biocontainers/valet .. _`valet/tags`: https://quay.io/repository/biocontainers/valet?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/valet/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/valet/README.html