J. Goecks, A. Nekrutenko, and J. Taylor, Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences, the Galaxy Team, vol.11, p.86, 2010.

D. Blankenberg, G. V. Kuster, N. Coraor, G. Ananda, R. Lazarus et al., Galaxy: a web-based genome analysis tool for experimentalists, Curr Protoc Mol Biol, vol.19, issue.10, pp.1-21, 2010.

B. Giardine, C. Riemer, R. C. Hardison, R. Burhans, L. Elnitski et al., Galaxy: a platform for interactive large-scale genome analysis, Genome Res, vol.15, pp.1451-1456, 2005.

J. Goecks, C. Eberhard, T. Too, A. Nekrutenko, and J. Taylor, Webbased visual analysis for high-throughput genomics, the Galaxy Team, vol.14, p.397, 2013.

, The UniProt Consortium. The universal protein resource (UniProt), Nucl Acids Res, vol.36, pp.190-195, 2008.

D. A. Benson, M. Cavanaugh, K. Clark, I. Karsch-mizrachi, D. J. Lipman et al., Nucl Acids Res, vol.41, pp.36-42, 2013.

B. Langmead and S. L. Salzberg, Fast gapped-read alignment with Bowtie 2, Nat Methods, vol.9, pp.357-366, 2012.

H. Li and R. Durbin, Fast and accurate short read alignment with Burrows-Wheeler transform, Bioinformatics, vol.25, pp.1754-60, 2009.

C. Camacho, G. Coulouris, V. Avagyan, N. Ma, J. Papadopoulos et al., Blast+: architecture and applications, BMC Bioinform, vol.10, p.421, 2009.

D. Blankenberg, J. Johnson, J. Taylor, and A. Nekrutenko, Wrangling Galaxy's reference data, Bioinformatics, vol.30, pp.1917-1926, 2014.

, Galaxy Main Tool Shed, vol.17, 2015.

O. Filangi, Y. Beausse, A. Assi, L. Legrand, J. Larré et al., BioMaj: a flexible framework for databanks synchronization and processing, Bioinformatics, vol.24, pp.1823-1828, 2008.
URL : https://hal.archives-ouvertes.fr/inria-00327502

C. Sloggett, N. Goonasekera, and E. Afgan, BioBlend: automating pipeline analyses within Galaxy and Cloudman, Bioinformatics, vol.29, pp.1685-1691, 2013.

, Genouest BioInformatics Platform. BioMAJ2Galaxy GitHub Repository. Accessed, vol.04, p.17, 2015.

, GenOuest BioInformatics Platform. GUGGO Tool Shed. Accessed, vol.04, p.17, 2015.

. Biogenouest, . Guggo-web, and . Site, , vol.17, 2015.

, Galaxy. Galaxy Contribution #577. Accessed 04, vol.17, 2015.

, Galaxy. Galaxy Contribution #601. Accessed 04, vol.17, 2015.

, Galaxy Project. BioBlend Contribution #105. Accessed 04, vol.17, 2015.

B. Néron, H. Ménager, C. Maufrais, N. Joly, J. Maupetit et al., Mobyle: a new full web bioinformatics framework, Bioinformatics, vol.25, pp.3005-3016, 2009.

, GenOuest BioInformatics Platform. GenOuest Galaxy Instance. Accessed, vol.04, p.17, 2015.

, GenOuest BioInformatics Platform. BIPAA Galaxy Instance. Accessed, vol.04, p.17, 2015.

A. Bretaudeau, C. Monjeaud, L. Bras, Y. Legeai, F. et al., Submit your next manuscript to BioMed Central and take full advantage of: ? Convenient online submission ? Thorough peer review ? No space constraints or color figure charges ? Immediate publication on acceptance ? Inclusion in PubMed, CAS, Scopus and Google Scholar ? Research which is freely available for redistribution, 2015.