Schedule

All times are PDT / UTC-07:00

Monday, June 20

8:50 Zoom session starts
9:00 Welcome, format and expectations and introductions
9:15 Connections, logging in, environment
9:30 Running jobs on a cluster
10:00 SnakeMake by Keith Mitchell, Bioinformatics Core, UC Davis
12:00 Lunch hour
1:00 Kmers and Genomes
4:00 Introduction to DNA Technologies Core
4:30 Wrap-up
5:00 Zoom session ends

Tuesday, June 21

8:50 Zoom session starts
9:00 Recap of previous day
9:30 Introduction to PacBio HiFi Data and Applications- Kristin Mars, Sequencing Application Specialist
10:00 High Quality Genome Assemblies with PacBio HiFi Data: A survey of Library Protocols for Creatures Large and Small- Dr. Sarah Kingan, Senior Staff Scientist
10:30 15 minute break
10:45 Improved Phased Assembly (IPA) Using HiFi Data- Dr. Ivan Sovic, Assembly Technical Lead
11:15 Morning wrap-up and lab set up
12:00 Lunch
1:00 Assembling the genome using PacBio’s HiFi data assembly tool, IPA- Dr. Zev Kronenberg, Senior Engineer
4:30 Wrap-up
5:00 Zoom session ends

Wednesday, June 22

8:50 Zoom session starts
9:00 Recap of previous day
9:30 Assembling a genome with Oxford Nanopore Data Dr. Jessie Li, Bioininformatics Core, UC Davis
12:00 Lunch
1:00 Assembling a genome with Oxford Nanopore Data (Cont.) Dr. Jessie Li, Bioininformatics Core, UC Davis
3:00 Bionano Genomics scaffolding Dr. Alex Hastie, Bionano Genomics
4:30 Wrap-up
5:00 Zoom session ends

Thursday, June 23

8:50 Zoom session starts
9:00 Recap of previous day
9:30 Scaffolding with HiC Data Dr. Shawn Sullivan, Phase Genomics
1:00 Busco, Dr. Sam Hunter, Bioinformatics Core, UC Davis
3:00 Genomics QA/QC
4:30 Wrap-up
5:00 Zoom session ends

Register

For the remote/virtual course in July.