:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'smallgenomeutilities' .. highlight: bash smallgenomeutilities ==================== .. conda:recipe:: smallgenomeutilities :replaces_section_title: :noindex: A collection of scripts that are useful for dealing with viral RNA NGS data. :homepage: https://github.com/cbg-ethz/smallgenomeutilities :license: GPL2 / GNU General Public License v2 or later (GPLv2+) :recipe: /`smallgenomeutilities `_/`meta.yaml `_ .. conda:package:: smallgenomeutilities |downloads_smallgenomeutilities| |docker_smallgenomeutilities| :versions: .. raw:: html
0.4.0-00.3.9-00.3.8-00.3.7-00.3.6-00.3.5-00.3.4-00.3.2-00.3.1-0 ``0.4.0-0``,  ``0.3.9-0``,  ``0.3.8-0``,  ``0.3.7-0``,  ``0.3.6-0``,  ``0.3.5-0``,  ``0.3.4-0``,  ``0.3.2-0``,  ``0.3.1-0``,  ``0.3.0-0``,  ``0.2.1-2``,  ``0.2.1-1``,  ``0.2.1-0``,  ``0.1-1``,  ``0.1-0`` .. raw:: html
:depends bcbio-gff: :depends biopython: :depends mafft: :depends matplotlib-base: :depends numpy: :depends pandas: :depends progress: :depends pysam: ``>=0.16`` :depends pysamstats: :depends python: ``>3`` :depends pyyaml: :depends scikit-learn: :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 smallgenomeutilities and update with:: mamba update smallgenomeutilities To create a new environment, run:: mamba create --name myenvname smallgenomeutilities 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/smallgenomeutilities: (see `smallgenomeutilities/tags`_ for valid values for ````) .. |downloads_smallgenomeutilities| image:: https://img.shields.io/conda/dn/bioconda/smallgenomeutilities.svg?style=flat :target: https://anaconda.org/bioconda/smallgenomeutilities :alt: (downloads) .. |docker_smallgenomeutilities| image:: https://quay.io/repository/biocontainers/smallgenomeutilities/status :target: https://quay.io/repository/biocontainers/smallgenomeutilities .. _`smallgenomeutilities/tags`: https://quay.io/repository/biocontainers/smallgenomeutilities?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/smallgenomeutilities/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/smallgenomeutilities/README.html