:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'isafe' .. highlight: bash isafe ===== .. conda:recipe:: isafe :replaces_section_title: :noindex: A program for identifying a favored mutation in positive selective sweep. :homepage: https://github.com/alek0991/iSAFE :license: BSD / BSD-3-Clause :recipe: /`isafe `_/`meta.yaml `_ :links: biotools: :biotools:`isafe`, doi: :doi:`10.1038/nmeth.4606` A program for identifying a favored mutation in positive selective sweep. It enables researchers to accurately pinpoint the favored mutation in a large region \(∼5 Mbp\) by using a statistic derived solely from population genetics signals. .. conda:package:: isafe |downloads_isafe| |docker_isafe| :versions: ``1.1.1-0``,  ``1.1.0-0``,  ``1.0.7-0`` :depends bcftools: ``>=1.2`` :depends numpy: ``>=1.9.0`` :depends pandas: ``>=0.18.0`` :depends python: :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 isafe and update with:: mamba update isafe To create a new environment, run:: mamba create --name myenvname isafe 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/isafe: (see `isafe/tags`_ for valid values for ````) .. |downloads_isafe| image:: https://img.shields.io/conda/dn/bioconda/isafe.svg?style=flat :target: https://anaconda.org/bioconda/isafe :alt: (downloads) .. |docker_isafe| image:: https://quay.io/repository/biocontainers/isafe/status :target: https://quay.io/repository/biocontainers/isafe .. _`isafe/tags`: https://quay.io/repository/biocontainers/isafe?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/isafe/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/isafe/README.html