GCC2019 has ended
The 2019 Galaxy Community Conference (GCC2019) was held in Freiburg, Germany, 1-8 July.  There was one day of training, three days of mixed meeting and training, and then two to four days of CollaborationFest.  The meeting featured joint & parallel sessions; invited, accepted, and lightning talks; poster and demo sessions; birds-of-a-feather meetups; social events; and training sessions every day.

Thanks to everyone who helped make GCC2019 a success!
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Thursday, July 4 • 11:27 - 11:47
High throughput HIV next generation sequence analysis in Galaxy

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Abstract, Slides

Dave Bouvier 2, Stephen Shank 1, Ryan Velazquez 1, Steven Weaver 1, Anton Nekrutenko 2, Sergei L Kosakovsky Pond 1

  1. Institute for Genomics and Evolutionary Medicine, Temple University, Philadelphia PA 19122
  2. Department of Biochemistry and Molecular Biology, Pennsylvania State University, State College PA, 16802
Findable, accessible, interoperable, and reusable tools for HIV next generation sequencing analyses have not yet become sufficiently adopted by the field. To lower adoption barriers, we have extended the popular and mature genome analytics platform Galaxy (usegalaxy.org) with a collection of HIV-centric tools. These tools (currently over 40 such tools ​​are available at galaxy.hyphy.org) enable tasks that are common to HIV-1 NGS workflows; quality control, read mapping, error correction, haplotype inference, multiple sequence alignment, phylogeny inference, molecular epidemiology, and selection analyses. Coupled with the plethora of other tools available within the Galaxy framework, this enables rapid development, deployment, sharing, and execution of complex end-to-end analytic workflows.

avatar for Dave Bouvier

Dave Bouvier

Computational Scientist, Galaxy Project, Penn State University

Thursday July 4, 2019 11:27 - 11:47

Attendees (27)