Location: 1429 Walnut St. Floor 10 Philadelphia, PA 19102
Dates: 10/14/2019 - 10/16/2019
| Time | Topic |
|---|---|
| Day 1 | |
| 9:00 AM | Welcome |
| 9:10 | Getting Started: Install Docker, Get files from flash drives, Docker container set up |
| 10:00 | Break |
| 10:15 | Introduction to R |
| 11:00 | R Intermediate Topics (including Tidyverse) |
| 11:45 | Exercises Introduction: Intro to R, Intro to Tidyverse |
| 12:30 | Lunch |
| 1:30 PM | Bulk RNA-seq I: QC, trim, and quantification with Salmon |
| 2:00 | Bulk RNA-seq II: Gene-Level Summaries with tximport |
| 2:45 | Break |
| 3:00 | Bulk RNA-seq III: Exploratory Analyses |
| 3:15 | Bulk RNA-seq IV: Differential Expression Analysis: tximport, Differential Expression |
| 4:45 | Exercise Introduction: Bulk RNA-seq |
| 5:00 | End |
| Day 2 | |
| 9:00 AM | scRNA-seq I: Normalizing a count matrix |
| 10:15 | Break |
| 10:30 | scRNA-seq II: Processing 10X data from raw |
| 12:30 PM | Lunch |
| 2:00 | scRNA-seq III: Dimensionality reduction |
| 2:45 | Exercise Introduction: scRNA-seq |
| 3:00 | Break |
| 3:30 | Machine Learning: Data Preparation, Clustering, PLIER, Differential PLIER LVs |
| 4:45 | Exercise Introduction: Machine Learning |
| 5:00 | End |
| 6:00 | Dinner: Nomad Roman |
| Day 3 | |
| 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 |