:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'sr2silo' .. highlight: bash sr2silo ======= .. conda:recipe:: sr2silo :replaces_section_title: :noindex: Short\-read to SILO format converter. :homepage: https://github.com/cbg-ethz/sr2silo :documentation: https://github.com/cbg-ethz/sr2silo/blob/v0.1.2/README.md :license: MIT / MIT :recipe: /`sr2silo <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/sr2silo>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/sr2silo/meta.yaml>`_ sr2silo is a tool for converting short read data to SILO format\, designed for bioinformatics applications. .. conda:package:: sr2silo |downloads_sr2silo| |docker_sr2silo| :versions: ``0.1.2-0``, ``0.1.1-0``, ``0.0.4-0`` :depends biopython: ``>=1.83`` :depends boto3: ``>=1.35.72`` :depends click: ``>=8.1.8`` :depends moto: ``>=5.0.22`` :depends psutil: ``>=6.1.1`` :depends pydantic: ``>=2.10.6`` :depends pysam: ``>=0.23.0`` :depends python: ``>=3.10`` :depends pyyaml: ``>=6.0.2`` :depends requests: ``>=2.25.0`` :depends tqdm: ``>=4.67.1`` :depends typer: ``>=0.15.1`` :depends zstandard: ``>=0.23.0`` :requirements: :additional platforms: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba <https://mamba.readthedocs.io>`_, `mamba <https://mamba.readthedocs.io>`_, or `conda <https://docs.conda.io/projects/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 <https://mamba.readthedocs.io>`_ 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 sr2silo and update with:: mamba update sr2silo To create a new environment, run:: mamba create --name myenvname sr2silo with ``myenvname`` being a reasonable name for the environment (see e.g. the `mamba docs <https://mamba.readthedocs.io>`_ for details and further options). Alternatively, use the docker container:: docker pull quay.io/biocontainers/sr2silo:<tag> (see `sr2silo/tags`_ for valid values for ``<tag>``) .. |downloads_sr2silo| image:: https://img.shields.io/conda/dn/bioconda/sr2silo.svg?style=flat :target: https://anaconda.org/bioconda/sr2silo :alt: (downloads) .. |docker_sr2silo| image:: https://quay.io/repository/biocontainers/sr2silo/status :target: https://quay.io/repository/biocontainers/sr2silo .. _`sr2silo/tags`: https://quay.io/repository/biocontainers/sr2silo?tab=tags .. raw:: html <script> var package = "sr2silo"; var versions = ["0.1.2","0.1.1","0.0.4"]; </script> Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html Link to this page ----------------- Render an |install-with-bioconda| badge with the following MarkDown:: [](http://bioconda.github.io/recipes/sr2silo/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/sr2silo/README.html