:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'smoove' .. highlight: bash smoove ====== .. conda:recipe:: smoove :replaces_section_title: :noindex: structural variant calling and genotyping with existing tools\, but\, smoothly :homepage: https://github.com/brentp/smoove :license: Apache / Apache-2.0 :recipe: /`smoove `_/`meta.yaml `_ .. conda:package:: smoove |downloads_smoove| |docker_smoove| :versions: .. raw:: html
0.2.8-10.2.8-00.2.7-00.2.6-10.2.6-00.2.5-00.2.4-00.2.3-10.2.3-0 ``0.2.8-1``,  ``0.2.8-0``,  ``0.2.7-0``,  ``0.2.6-1``,  ``0.2.6-0``,  ``0.2.5-0``,  ``0.2.4-0``,  ``0.2.3-1``,  ``0.2.3-0``,  ``0.1.9-0``,  ``0.1.6-0``,  ``0.1.5-0``,  ``0.1.4-0``,  ``0.1.3-0``,  ``0.1.1-0`` .. raw:: html
:depends bcftools: :depends duphold: :depends gsort: :depends htslib: :depends lumpy-sv: ``>=0.3`` :depends mosdepth: :depends samtools: :depends svtools: :depends svtyper: :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 smoove and update with:: mamba update smoove To create a new environment, run:: mamba create --name myenvname smoove 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/smoove: (see `smoove/tags`_ for valid values for ````) .. |downloads_smoove| image:: https://img.shields.io/conda/dn/bioconda/smoove.svg?style=flat :target: https://anaconda.org/bioconda/smoove :alt: (downloads) .. |docker_smoove| image:: https://quay.io/repository/biocontainers/smoove/status :target: https://quay.io/repository/biocontainers/smoove .. _`smoove/tags`: https://quay.io/repository/biocontainers/smoove?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/smoove/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/smoove/README.html