Organizers: Satria Kautsar and Zhong Wang
This workshop serves as an introduction to JGI's scalable metagenomics toolbox. Presentations will cover large-scale metagenome assembly using MetaHipMer, metagenome binning with MetaBAT and GenomeFace, and large-scale metagenome protein family detection with HipMCL. We will also introduce a new Apache Spark based scalable genomics library, Axolotl, and demo its usage in large-scale biosynthetic gene cluster discovery. The workshop will also have a hands-on component focused on customized analysis with Axolotl using cloud computing. This workshop is designed for users who are interested in using the JGI scalable tools for customized large-scale data analysis.
Please fill out the preworkshop survey: [Preworkshop Survey] (https://forms.gle/9Cx4BDdp7okz4jp26) [Postworkshop Survey] (https://forms.gle/KsHurxFkZaxN9D8U6)
9:00-9:05 Introduction to JGI's scalable metagenomics toolbox (Zhong Wang)
9:05-9:20 Terabase Scale Metagenomics for Scientific Discovery (Kurt LaButti)
9:20-9:30 Large Scale Metagenome Assembly Using MetaHipMer (Rob Egan)
9:30-9:40 Metagenome Binning with MetaBAT and GenomeFace (Rob Egan)
9:40-9:50 Large Scale Metagenome Protein Family Detection with HipMCL (Aydin Buluc)
9:50-10:00 Large Scale Biosynthetic Gene Cluster Discovery with Axolotl (Satria Kautsar)
10:00-10:20 Coffee and Networking Break (meet the developers!)
10:20-10:30 Introduction to GCP’s DataProc Spark Service (Steven Boesel, Google)
10:30-11:00 Using DataProc handson (Steven Boesel, Google)
11:00-12:00 Hands On workshop: customized analysis with Axolotl Toy problem to do it on their laptop or DataProc, but (later) scalable on HPC or Cloud. (Satria Kautsar, Fengchen Liu, Zhong Wang)
- Sessions include time for Q&A.