In this hands-on workshop, participants will learn how to:
- Identify analyses relevant to their scientific objectives
- Analyze and visualize gene expression (including RNA-seq) and other genomic data
- Ensure that their analyses are reproducible
- Create and publish research narratives that serve as a live, executable, sharable representation of a study
Schedule
9:00 AM – GenePattern Overview
9:10 AM – Introduction to GenePattern Notebook
9:50 AM – Data Preparation
10:20 AM – Jupyter Basics
10:35 AM – Using Python code and dataframes
10:45 AM – Coffee Break
11:00 AM – Differential Gene Expression Analysis
11:45 AM – Gene Set Enrichment Analysis (GSEA)
12:15 PM – Boxed Lunch Provided
1:00 PM – Clustering
1:45 PM – Dimension Reduction
2:15 PM – Classification and Prediction
2:45 PM – Coffee Break
3:00 PM – GenePattern Notebook and Python
3:30 PM – Integrative Genomics Viewer (IGV)
3:45 PM – Class Project
4:30 PM – Other GenePattern Features/Closing
Event details can be viewed below, and on our website: http://www.ccmi.org/genepattern-sf.