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All Projects → sequana → Sequana

sequana / Sequana

Licence: bsd-3-clause
Sequana: a set of Snakemake NGS pipelines

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SEQUANA ############

.. image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat-square) :target: http://bioconda.github.io/recipes/sequana/README.html

.. image:: https://badge.fury.io/py/sequana.svg :target: https://pypi.python.org/pypi/sequana

.. image:: https://travis-ci.org/sequana/sequana.svg?branch=master :target: https://travis-ci.org/sequana/sequana

.. image:: https://coveralls.io/repos/github/sequana/sequana/badge.svg?branch=master :target: https://coveralls.io/github/sequana/sequana?branch=master

.. image:: http://readthedocs.org/projects/sequana/badge/?version=master :target: http://sequana.readthedocs.org/en/latest/?badge=master :alt: Documentation Status

.. image:: http://joss.theoj.org/papers/10.21105/joss.00352/status.svg :target: http://joss.theoj.org/papers/10.21105/joss.00352 :alt: JOSS (journal of open source software) DOI

:Python version: 3.6, 3.7.3 (below for now) :Documentation: On readthedocs <http://sequana.readthedocs.org/>_ :Issues: On github <https://github.com/sequana/sequana/issues>_ :How to cite: For Sequana in general including the pipelines, please use the JOSS DOI (10.21105/joss.00352) <http://www.doi2bib.org/#/doi/10.21105/joss.00352>_

For the **genome coverage** tool (sequana_coverage):  Dimitri Desvillechabrol,
Christiane Bouchier, Sean Kennedy, Thomas Cokelaer
http://biorxiv.org/content/early/2016/12/08/092478

For **Sequanix**: Dimitri Desvillechabrol, Rachel Legendre, Claire Rioualen,
Christiane Bouchier, Jacques van Helden, Sean Kennedy, Thomas Cokelaer.
Sequanix: A Dynamic Graphical Interface for Snakemake Workflows 
Bioinformatics, bty034, https://doi.org/10.1093/bioinformatics/bty034
Also available on bioRxiv (DOI: https://doi.org/10.1101/162701)

Sequana includes a set of pipelines related to NGS (new generation sequencing) including quality control, variant calling, coverage, taxonomy, transcriptomics. We also ship Sequanix, a graphical user interface for Snakemake pipelines.

Please see the documentation <http://sequana.readthedocs.org>_ for an up-to-date status and documentation.

Note that the project description data, including the texts, logos, images, and/or trademarks, for each open source project belongs to its rightful owner. If you wish to add or remove any projects, please contact us at [email protected].