:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'pyfaidx' .. highlight: bash pyfaidx ======= .. conda:recipe:: pyfaidx :replaces_section_title: :noindex: pyfaidx\: efficient pythonic random access to fasta subsequences :homepage: https://github.com/mdshw5/pyfaidx/ :documentation: https://pythonhosted.org/pyfaidx/ :license: BSD / BSD License :recipe: /`pyfaidx `_/`meta.yaml `_ :links: biotools: :biotools:`pyfaidx`, doi: :doi:`10.7287/peerj.preprints.970v1` .. conda:package:: pyfaidx |downloads_pyfaidx| |docker_pyfaidx| :versions: .. raw:: html
0.8.1.1-00.8.0-00.7.2.2-00.7.2.1-10.7.2.1-00.7.1-00.7.0-10.7.0-00.6.4-0 ``0.8.1.1-0``,  ``0.8.0-0``,  ``0.7.2.2-0``,  ``0.7.2.1-1``,  ``0.7.2.1-0``,  ``0.7.1-0``,  ``0.7.0-1``,  ``0.7.0-0``,  ``0.6.4-0``,  ``0.6.3.1-1``,  ``0.6.3.1-0``,  ``0.6.2-0``,  ``0.6.1-0``,  ``0.6.0-0``,  ``0.5.9.5-0``,  ``0.5.9.4-0``,  ``0.5.9.2-0``,  ``0.5.9.1-1``,  ``0.5.9.1-0``,  ``0.5.9-1``,  ``0.5.9-0``,  ``0.5.8-1``,  ``0.5.8-0``,  ``0.5.7-0``,  ``0.5.6-0``,  ``0.5.5.2-1``,  ``0.5.5.2-0``,  ``0.5.4.1-0``,  ``0.5.3-0``,  ``0.5.1-0``,  ``0.5.0-0``,  ``0.4.9.2-0``,  ``0.4.8.1-4``,  ``0.4.8.1-3``,  ``0.4.8.1-2``,  ``0.4.8.1-0``,  ``0.4.7.1-3``,  ``0.4.7.1-2``,  ``0.4.7.1-0``,  ``0.4.4-0`` .. raw:: html
:depends biopython: :depends importlib-metadata: :depends packaging: :depends python: ``>=3.7`` :depends pyvcf3: :depends setuptools: :depends six: :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 pyfaidx and update with:: mamba update pyfaidx To create a new environment, run:: mamba create --name myenvname pyfaidx 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/pyfaidx: (see `pyfaidx/tags`_ for valid values for ````) .. |downloads_pyfaidx| image:: https://img.shields.io/conda/dn/bioconda/pyfaidx.svg?style=flat :target: https://anaconda.org/bioconda/pyfaidx :alt: (downloads) .. |docker_pyfaidx| image:: https://quay.io/repository/biocontainers/pyfaidx/status :target: https://quay.io/repository/biocontainers/pyfaidx .. _`pyfaidx/tags`: https://quay.io/repository/biocontainers/pyfaidx?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/pyfaidx/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/pyfaidx/README.html