GCC 2017 has ended
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.

The full printed program is also available.
Back To Schedule
Wednesday, June 28 • 15:30 - 18:00
SNP analysis and GWAS using SNiPlay

Sign up or log in to save this to your schedule, view media, leave feedback and see who's attending!

Slides, Tutorial

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 CEST
Sully 3 Level 1, Le Corum