The planned schedule for the June 10-12, 2025 Data Lab Training Workshop appears below.

Time Topic
Day 1 2025-06-10
9:00 AM Welcome, Introductions and Getting Started
10:00 AM Introduction/Refresher to Single-cell Analysis with R and Bioconductor
  Single-cell Analysis with R slides (PDF)
  Instruction notebook
11:15 AM Coffee break
11:30 AM Introduction/Refresher to Single-cell Analysis, continued
12:15 PM Lunch
1:15 PM Integrating scRNA-seq Experiments
  Integration slides (PDF)
  Instruction notebook
2:30 PM Coffee break
2:45 PM Integrating scRNA-seq Experiments, continued
4:15 PM Exercises and Questions
  Exercise: Importing CITE-seq data
  Exercise: Cell type assignment
This exercise is available in the scRNA-seq module
  Exercise: Integration
5:00 PM Adjourn for the day
   
Day 2 2025-06-11
9:00 AM Questions and Review
9:30 AM Differential Expression Analysis with scRNA-seq
  Differential Expression slides (PDF)
  Instruction notebook
11:00 AM Coffee break
11:15 AM Differential Expression Analysis, continued
12:30 PM Lunch
1:30 PM Exercises, Questions, and Independent Projects
  Exercise: Differential Expression
  Resources for consultation sessions
4:00 PM Adjourn for the day
6:00 PM Workshop dinner: Manayunk Brewing Company
4120 Main St, Philadelphia PA 19127
   
Day 3 2025-06-12
9:00 AM Questions and Review
9:30 AM Pathway Analysis
  Pathway Analysis Slides (PDF)
  Instruction notebook: Gene Set Enrichment Analysis (GSEA)
11:00 AM Coffee break
11:15 AM Instruction notebook: AUCell
12:30 PM Lunch
1:30 PM Exercises, Questions, and Independent Projects
  Exercise: AUCell
  Exercise: Evaluating cluster quality
  Resources for consultation sessions
2:45 PM An Introduction to the OpenScPCA Project
3:00 PM Participant Presentations!
4:00 PM Adjourn