Traning material developed by Childhood Cancer Data Lab
Alex's Lemonade Stand Foundation https://www.alexslemonade.org
Location: Mellon Institute Library, 4th Floor Mellon Institute
Dates: 03/24/2020 - 03/26/2020
To apply: https://forms.gle/a4uHbSRDHrsx13dP7
| Time | Topic |
|---|---|
| Day 0 (03/24) | Pre-workshop to set up your computer |
| 3 -5:00 PM | Getting Started: Install Docker, Get files from Box, Docker container set up |
| Day 1 (03/25) | |
| 9:00 | Welcome |
| 9:15 | Introduction to R |
| 10:00 | R Intermediate Topics (including Tidyverse) |
| 10:45 | Exercises Introduction: Intro to R, Intro to Tidyverse |
| 11:30 PM | Bulk RNA-seq I: QC, trim, and quantification with Salmon |
| 12:00 | Lunch |
| 1:00 | Bulk RNA-seq II: Gene-Level Summaries with tximport |
| 1:45 | Bulk RNA-seq III: Exploratory Analyses |
| 2:00 | Bulk RNA-seq IV: Differential Expression Analysis: tximport, Differential Expression |
| 3:30 | Exercise Introduction: Bulk RNA-seq |
| 3:45 | Break |
| 4:00 | Machine Learning: Data Preparation, Clustering, PLIER, Differential PLIER LVs |
| 5:15 | Exercise Introduction: Machine Learning |
| 5:30 | End |
| 6:00 | Dinner: TBD |
| Day 2 (03/26) | |
| 9:00 AM | Analyze your own data (or some stuff we have)! |
| 12:30 PM | Lunch |
| 2:00 | Presentations, interpretations, and discussion |
| 3:30 | Break |
| 4:00 | Talk from CCDL data science team and wrap-up |
| 5:00 | Adjourn |