:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'svim-asm' .. highlight: bash svim-asm ======== .. conda:recipe:: svim-asm :replaces_section_title: :noindex: SVIM\-asm is a fork of the SV caller SVIM for genome\-genome alignments. :homepage: https://github.com/eldariont/svim-asm :license: GPL / GPL-3.0 :recipe: /`svim-asm `_/`meta.yaml `_ .. conda:package:: svim-asm |downloads_svim-asm| |docker_svim-asm| :versions: ``1.0.3-0``,  ``1.0.2-0``,  ``1.0.1-0``,  ``1.0.0-0``,  ``0.1.0-0`` :depends matplotlib-base: :depends numpy: :depends pysam: ``>=0.15`` :depends python: ``>=3.6`` :depends python-edlib: :depends scipy: :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 svim-asm and update with:: mamba update svim-asm To create a new environment, run:: mamba create --name myenvname svim-asm 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/svim-asm: (see `svim-asm/tags`_ for valid values for ````) .. |downloads_svim-asm| image:: https://img.shields.io/conda/dn/bioconda/svim-asm.svg?style=flat :target: https://anaconda.org/bioconda/svim-asm :alt: (downloads) .. |docker_svim-asm| image:: https://quay.io/repository/biocontainers/svim-asm/status :target: https://quay.io/repository/biocontainers/svim-asm .. _`svim-asm/tags`: https://quay.io/repository/biocontainers/svim-asm?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/svim-asm/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/svim-asm/README.html