Sequanix: a dynamic graphical interface for Snakemake workflows

Abstract

Summary</jats:title><jats:p>We designed a PyQt graphical user interface – Sequanix – aiming at democratizing the use of Snakemake pipelines. Although the primary goal of Sequanix was to facilitate the execution of NGS Snakemake pipelines available in the Sequana project (<jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="http://sequana.readthedocs.io">http://sequana.readthedocs.io</jats:ext-link>), it can also handle any Snakemake pipelines. Therefore, Sequanix should be useful to all Snakemake developers willing to expose their pipelines to a wider audience.</jats:p></jats:sec><jats:sec><jats:title>Availability</jats:title><jats:p>Source code available on <jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="http://github.com/sequana/sequana">http://github.com/sequana/sequana</jats:ext-link> and standalone on <jats:ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri" xlink:href="http://bioconda.github.io">http://bioconda.github.io</jats:ext-link> (sequana package).</jats:p></jats:sec

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• http://dx.doi.org/10.1101/162701 under the license http://creativecommons.org/licenses/by-nc/4.0

• http://europepmc.org/articles/PMC5972652

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• https://dx.doi.org/10.1093/bioinformatics/bty034 under the license cc-by-nc

• https://www.biorxiv.org/content/biorxiv/early/2017/07/12/162701.full.pdf

• http://academic.oup.com/bioinformatics/article-pdf/34/11/1934/25171322/bty034.pdf,

http://dx.doi.org/10.1093/bioinformatics/bty034 under the license cc-by-nd

• https://academic.oup.com/bioinformatics/article/34/11/1934/4817647,

https://dblp.uni-trier.de/db/journals/bioinformatics/bioinformatics34.html#Desvillechabrol18,

https://hal-amu.archives-ouvertes.fr/hal-01874933,

https://www.ncbi.nlm.nih.gov/pubmed/29361152,

https://europepmc.org/abstract/PPR/PPR16384,

https://hal-amu.archives-ouvertes.fr/hal-01874933/document,

https://pubag.nal.usda.gov/catalog/6249380,

https://academic.microsoft.com/#/detail/2949851956 under the license http://creativecommons.org/licenses/by-nc/4.0/

• https://hal-amu.archives-ouvertes.fr/hal-01874933,

https://hal-amu.archives-ouvertes.fr/hal-01874933/document,

https://hal-amu.archives-ouvertes.fr/hal-01874933/file/bty034.pdf

• https://syndication.highwire.org/content/doi/10.1101/162701,

http://dx.doi.org/10.1101/162701 under the license http://creativecommons.org/licenses/by-nc/

• https://www.biorxiv.org/content/10.1101/162701v1,

https://www.biorxiv.org/content/early/2017/07/12/162701.full.pdf,

https://academic.microsoft.com/#/detail/2735558130

DOIS: 10.1093/bioinformatics/bty034 10.1101/162701