sequana

A set of standalone application and pipelines dedicated to NGS (new generation sequencing) analysis

Project description

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JOSS (journal of open source software) DOI

Online documentation:
Python version:	3.5, 3.6
	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. 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 for an up-to-date status and documentation.