Workshop schedule

Note 1: The Basic Data Skills Introduction to R workshop is a prerequisite.

Note 2: In this workshop we use expression data generated using Salmon; the training materials for that portion of the workflow was covered in the Advanced Topics Introduction to (bulk) RNA-seq using High-Performance Computing workshop.

Day1

Time Topic Instructor
09:00 - 9:15 Introduction to Workshop Radhika
09:15 - 10:00 R Refresher Session Mary
10:00 - 10:15 Coffee  
10:15 - 11:25 Overview of DGE Analysis Workflow Meeta
11:25 - 12:15 Setting up for DGE Analysis: Count Normalization Jihe
12:15 - 13:15 Lunch  
13:15 - 14:40 Setting up for DGE Analysis: Count Data QC Radhika
14:40 - 15:10 Overview of DESeq2 Methods Mary
15:10- 15:25 Coffee  
15:25 - 15:55 Overview of DESeq2 Methods Mary
15:55 - 17:00 DGE Analysis: Pairwise Comparisons (Wald Test) Meeta

Day2

Time Topic Instructor
9:00 - 9:15 DGE Analysis: Workflow Summarization Mary
9:15 - 10:15 DGE Analysis: Visualization Radhika
10:15 - 10:30 Coffee  
10:30 - 11:00 DGE Analysis: Visualization (cont’d) Radhika
11:00 - 12:00 DGE Analysis: Likelihood Ratio Test Meeta
12:00 - 13:00 Lunch  
13:00 - 14:00 Gene Annotations Meeta
14:00 - 14:30 Functional Analysis Jihe
14:30- 14:45 Coffee  
14:45 - 16:15 Functional Analysis (cont’d) Mary
16:15 - 17:00 Wrap-up Radhika