Workshop: Doing Genomics in the Cloud: From Repository to Result
Please note: This workshop is now full and registration is closed for it.
Session 1: Wednesday, June 2, 2021, 9:00 AM – 12:00 PM CDT
* Building a Kubernetes cluster
* Running example genomics workflows
Session 2: Wednesday, June 2, 2021, 1:00 PM – 4:00 PM CDT
* Running another larger genomics workflow
* Pulling in data from an hICN genome content delivery network and from the SRA repository directly
Presenter: Dr. F. Alex Feltus, Professor, Genetics and Biochemistry Department, Clemson University
Co-presenters: Meenakshi Kaushik (Cisco), Jacob Loftis (Cisco), and Cole McKnight (Clemson University)
Target Audience: Undergrads, Grad students, Post-Docs, Faculty, IT professionals
Workshop Size: Limited to the first 40 people who register.
Abstract: Computational genomics has become a core toolkit in the study of biological systems at the molecular level. To run genomics workflows, a researcher needs access to advanced computer systems including compute, storage, memory, and networks to move and mine huge genomics datasets. The Cloud provides scalable compute solutions to run workflows. In this workshop, we will demonstrate how one can create a compute cluster in the Cloud using Kubernetes and run containerized genomics workflows. The Cloud workflows will include pulling high-throughput DNA datasets from the NCBI-SRA data repository, performing reference genome mapping of SRA RNAseq datasets, and building a gene co-expression network. All code and skills are useful after the workshop.
We recognize and thank the following companies that contributed resources to make this workshop possible: Praxis AI LLC, Cisco, and c-Light.
Workshop: Intermediate perfSONAR Tips and Tactics
Session 1: Wednesday, June 2, 2021, 10:00 AM – 12:00 PM CDT
* Command line testing and troubleshooting (45 minutes, including Q&A)
* MaDDash setup and configuration (45 minutes, including Q&A)
Session 2: Wednesday, June 2, 2021, 1:00 PM – 3:15 PM CDT
* PWA and testing frequency? (45 minutes, including Q&A)
* Ansible provisioning (75 minutes, including Q&A)
Presenter: Doug Southworth, Network Systems Analyst, International Networks @ Indiana University Bloomington
Target Audience: Current, active perfSONAR users and administrators
Abstract: This interactive workshop will cover several intermediate level perfSONAR topics, including MaDDash setup and configuration, command line testing and troubleshooting, and automated provisioning with Ansible, along with Q&A time for each topic. Audience participation is encouraged!
Registration is closed.
Separate registration is required in order to attend a workshop. Both workshops are free and open to anyone. The deadline for registering is Friday, May 28, 2021, 5:00 PM Central. Detailed information on how to connect to the workshop Zoom sessions will be distributed by email to all registered attendees the week prior to the conference.