Single Cell RNA-seq 2023
Welcome
The course schedule can be found here
Meet your faculty here
Pre-Workshop Materials
Pre-work including programs to install can be found here.
AWS Module
Connecting and properly using a cloud computing cluster at the CBW here
Class Photo
Single Cell RNA-seq Analysis Class of 2023
scRNA23 Workshop Social
Day 1
Welcome
Nia Hughes
Module 1: Introduction to Single Cell RNA-seq
Trevor Pugh
Module 2: Read Quantification
Tallulah Andrews
Module 2 Lecture Slides
Lab: Data Structures | Answers | HTML Answers
Lab: Quantification | Answers | HTML Answers
Module 3: Quality Control and Normalization
Tallulah Andrews
Module 3 Lecture Slides
Lab: QC & Normalization | Rmd Answers (first half) | HTML Answers
Day 2
Module 4: Dimensionality Reduction & Visualization
Tallulah Andrews
Module 4 Lecture Slides
Lab: Dimensionality Reduction and Visualization | Answers (second half) | HTML Answers
Module 5: Biological Analyses
Tallulah Andrews
Module 5 Lecture Slides
Lab: Clustering | Answers | HTML Answers
Module 6: Data Set Integration
Gary Bader
Module 6 Lecture Slides
Lab: Data Set Integration | Answers
Post-Workshop Materials
CourseData
If clicking this link does not start the download, please copy and paste the URL into a new tab or window. Please also note that some of these files are quite large. If you have issues downloading them, contact us at support@bioinformatics.ca. CourseData
AMI
We have made our AWS AMI (Amazon Machine Image) publicly available. To launch your own instance, follow the instructions provided by Amazon on how to launch an EC2 instance from a custom Amazon Machine Image. Please note that you will need an AWS account to proceed, and that you will need to upload the CourseData files yourself.
Here are the details of the AMI:
- AWS Region: us-east-1 (N. Virgina)
- AMI type: public image
- AMI name: CBW_scRNA_230719
- AMI ID: ami-08f9380781016295b
If you want to create and activate a new AWS account, please follow the instructions provided by Amazon.
Software
For information on installing the necessary tools, please visit