Upcoming Event: EMBL ABR Training Day: CyVerse (formerly iPlant Collaborative)


EMBL ABR Training Day: CyVerse


Scientific Organiser: Dr Jason William & Dr Vicky Schneider

Event Organiser: Christina Hall

When: Monday, 11 April 2016 from 9:00 AM to 3:30 PM (AEST)

Where: Lab-14 Seminar Space, VLSCI – The University of Melbourne 700 Swanston St (cnr Grattan St), Carlton, VIC 3053, Australia

Cost: $45

Details: https://www.embl-abr.org.au/about/events/


CyVerse (formerly iPlant Collaborative) is the national life science cyberinfrastructure funded by the U.S. National Science Foundation. The infrastructure’s purpose is to scale science and people by enabling biologists tools for storing, sharing, and analyzing large, diverse, biological datasets as well as providing the training needed to make use of advanced computational resources including high-performance and cloud computing.

Currently CyVerse is a community of more than 30,000 users at every level of bioinformatics experience (from little-to-no bioinformatics training to power user). For genomics, we support more than a dozen core workflows (e.g. genome/transcriptome assembly, RNA-Seq, variant calling, Methylation analysis, etc.). Additionally, CyVerse platforms support the management and analysis of other large datasets including images, climate data, and more. Users within CyVerse can customize their experience by bringing their own bioinformatics tools and pipelines (via Docker, virtual machines, or deployment via our APIs).

Several hands-on demos and guided exercises, workshop participants will get a comprehensive look at CyVerse tools and services for large-scale data analysis. Use cases will draw on topics in genomics (including RNA-Seq, assembly, annotation, etc.) and lectures on theory will help you to plan, build, and critique your own experiments.

Participants will get hands-on experience with the following CyVerse cyberinfrastructure:

  • Discovery Environment: Simple web portal for managing data, analyses, and workflows. Complex bioinformatics applications can be run without knowing command line programming; users can also integrate their own tools.
  • Data Store: Scalable, secure, and reliable storage for terabyte-scale data.
  • Atmosphere: Hundreds of biology-customized images for on-demand cloud computing.
  • DNA Subway: Classroom-friendly bioinformatics workflows for inquiry-based learning.

CyVerse is freely available and users can sign up for an account at http://www.cyverse.org.

About the Presenter, Jason Williams:

Jason is Assistant Director, External Collaborations at Cold Spring Harbor Laboratory’s DNA Learning Center and is the Education, Outreach, and Training lead for CyVerse. Jason organizes, instructs, and speaks at more than dozen bioinformatics workshops, conferences, and meetings annually. In addition to Cold Spring Harbor, Jason is faculty at Yeshiva University in New York, where he created and instructs a research program for their Girl’s High School. Jason also serves on committees and boards for several projects that advance science and science education including service on the Steering Committee of the Software Carpentry Foundation (www.software-carpentry.org) in 2015-16, 2016-17. He is also a Software and Data Carpentry Instructor.

*Please note: attendance at this workshop will cost $45 – you will be contacted to complete payment after your registration.


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