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Sequana: a set of Snakemake NGS pipelines

Home Page: http://sequana.readthedocs.io

License: BSD 3-Clause "New" or "Revised" License

Shell 0.22% Jupyter Notebook 10.50% Python 88.33% Makefile 0.01% CSS 0.54% HTML 0.39%

sequana's Introduction

SEQUANA

https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat-square) https://travis-ci.org/sequana/sequana.svg?branch=master https://coveralls.io/repos/github/sequana/sequana/badge.svg?branch=master Documentation Status JOSS (journal of open source software) DOI
Python version:

3.5 (and 2.7 without snakemake)
Online documentation:

On readthedocs
Issues and bug reports:

On github
How to cite:

For Sequana in general including the pipelines, please use the JOSS 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 http://www.biorxiv.org/content/early/2017/07/12/162701 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 for an up-to-date status and documentation.

sequana's People

Contributors

cokelaer avatar ddesvillechabrol avatar rlegendre avatar arfon avatar

Watchers

James Cloos avatar avatar

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