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The 2017 Galaxy Community Conference (GCC2017) is being held in Montpellier, France, 26-30 June.  GCC2017 will include keynotes and accepted talks, poster sessions, demos, birds-of-a-feather meetups, exhibitors, and plenty of networking opportunities. There will also be three days of pre-conference activities, including hackathons and training. If you work in data-intensive biomedical research, there is no better place than GCC2017 to present your work and to learn from others.
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Wednesday, June 28 • 15:30 - 18:00
SNP analysis and GWAS using SNiPlay

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SNiPlay workflow allows to exploit high density SNP data from a VCF file. In this trainings, we will show how to analyze SNP data in different ways:

  • Population structure analysis
  • SNP density and diversity analyses along the chromosomes, and comparison of groups/populations
  • GWAS analysis using associated phenotypic data
  • SNP annotation using an GFF-annotated genome
  • Visualise outputs from the different analyses using a specific Galaxy plugin

SNiPlay has been integrated into Galaxy and is available via the main Tool Shed as a complete workflow.

Dereeper A, Homa F, Andres G, Sempere G, Sarah G, Hueber Y, Dufayard JF, Ruiz M. SNiPlay3: a web-based application for exploration and large scale analyses of genomic variationsNucleic Acids Res. 2015 Jul 1;43(W1):W295-300.

  • Galaxy 101 or equivalent experience.
  • Ideally participants will already be familiar with SNP data manipulation
  • A wi-fi enabled laptop with a modern web browser. Google Chrome, Firefox and Safari will work best. 

avatar for Yann Hueber

Yann Hueber

Bioinformatician, Bioversity International

Wednesday June 28, 2017 15:30 - 18:00
Sully 3 Level 1, Le Corum

Attendees (9)