Schedule

Monday, August 17

8:50 am Zoom session starts
9:00 am Welcome, format and expectations and introductions
9:30 am Connections, logging in, environment
10:15 am Running jobs on a cluster
11:00 am Genomics/Bioinformatics Talk
12:00 pm Lunch review Intro/Adv Command Line on your own as needed
1:00 pm Expression Matrices
1:15 pm Expression Project Setup
1:45 pm HTStream Preprocessing
2:00 pm Hands on
2:30 pm 15 minute break
2:45 pm Creating References
3:00 pm Hands on
3:15 pm Read counting with Cellranger/Star solo/Salmon alevin
3:45 pm Hands on
4:45 pm Recap and Homework
5:00 pm Zoom session ends

Tuesday, August 18

8:50 am Zoom session starts
9:00 am Recap and check everyones session
9:15 am Go over mapping indexes
9:45 am Go over mapping scripts
10:15 am 15 minute break
10:30 am Review mapping output
11:00 am Cell Preparation Talk Dr. Diana Burkart-Waco, UC Davis DNA Technologies Core
11:45 am Review R expectations
12:00 pm Lunch hour
1:00 pm Mapping Comparison in R
1:30 pm Hands on
2:00 pm Anchoring in R
2:30 pm Hands on
3:00 pm 15 minute break
3:15 pm Shiny App by Keith Mitchell
* Shiny Practical (Hands on)
* Shiny in AWS (Optional)
4:45 pm Recap and Homework
5:00 pm Zoom session ends

Wednesday, August 19

8:50 am Zoom session starts
9:00 am Recap and questions
9:30 am Monocle
10:45 am 15 minute break
11:00 am Experimental Design Talk
12:00 pm Lunch
1:00 pm VDJ data reduction
2:00 pm VDJ anaysis
2:30 pm VDJ anaysis
3:15 pm Velocity data reduction
3:45 pm Velocity data analysis
4:45 pm Closing
5:00 pm Zoom session ends