Workshop Description (Intermediate Course)
This workshop aims to introduce the basic concepts and algorithms for single-cell RNA-seq analysis. It will help participants obtain a better idea of how to use scRNA-seq technology, from considerations in experimental design to data analysis and interpretation. This workshop can serve researchers who are interested in designing an scRNA-seq study or who have acquired scRNA-seq data and would like to learn about different analytical approaches.
Workshop Materials
Day 1
Day 1:
- Concept of scRNA-seq and main applications
- Important issues in experimental design
- Comparison between popular technical platforms
- Raw data processing
Day 2
Day 2:
- Overview of scRNA-Seq analysis and logistics of Scanpy;
- Data preprocessing: loading, QC/filtering, normalization/scaling;
- Dimensionality reduction and clustering;
- Identification of marker genes;
- Visualizations.
Day 3
Pitfalls and considerations
Techinical Requirements
Students should have a working copy of Python3 with the Scanpy, Numpy, Pandas, and Matplotlib packages installed. An integrated development environment (IDE) for Python, such as PyCharm or Spyder is also recommended.
Instructors
Videos
Reviews
I felt this workshop was very useful.
Workshop Details
Prerequisites: Experience with Python is helpful, but not required.
Length: 3 days, 3 hrs per day
Level: Intermediate
Location: ZOOM
Seats Available: TBD
Fall 2020 Dates
November 9, 10, and 12
1:30 PM to 4:30 PM
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