:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'simbac' .. highlight: bash simbac ====== .. conda:recipe:: simbac :replaces_section_title: :noindex: SimBac simulates bacterial genomes with the clonal genealogy under a coalescent model with recombination. :homepage: https://github.com/tbrown91/SimBac :license: GPL-3.0 :recipe: /`simbac `_/`meta.yaml `_ :links: doi: :doi:`10.1099/mgen.0.000044` .. conda:package:: simbac |downloads_simbac| |docker_simbac| :versions: ``0.1a-5``,  ``0.1a-4``,  ``0.1a-3``,  ``0.1a-2``,  ``0.1a-1``,  ``0.1a-0`` :depends gsl: ``>=2.7,<2.8.0a0`` :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :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 simbac and update with:: mamba update simbac To create a new environment, run:: mamba create --name myenvname simbac 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/simbac: (see `simbac/tags`_ for valid values for ````) .. |downloads_simbac| image:: https://img.shields.io/conda/dn/bioconda/simbac.svg?style=flat :target: https://anaconda.org/bioconda/simbac :alt: (downloads) .. |docker_simbac| image:: https://quay.io/repository/biocontainers/simbac/status :target: https://quay.io/repository/biocontainers/simbac .. _`simbac/tags`: https://quay.io/repository/biocontainers/simbac?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/simbac/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/simbac/README.html