1 Getting started

Instructors: Adele Barugahare, Paul Harrison & Laura Perlaza-Jimenez

1.1 Summary

This workshop, conducted by the Monash Genomics and Bioinformatics Platform, will cover how to extend analysis to contemporary third-party tools, Seurat and SingleR. We will be walking through the Seurat 3K PBMC Dataset Tutorial and extend this to cell annotation using SingleR.
Material for scRNAseq analysis in R with Seurat workshop.This workshop follows the introductory Guided Clustering Tutorial tutorial from Seurat.

Important links:

• Installation and Setup instructions
• Slideshow introduction
• Challenge solutions (no peeking!)

1.1.1 Recommended Computer Requirements:

System Requirements:

Windows:

• Windows 8.1 (64-bit) or later
• 4GB RAM
• SSD storage highly recommended
• Updated video/display drivers recommended

macOS:

• macOS 10.15 (Catalina) or later
• 4GB RAM
• SSD storage highly recommended

Install latest versions of:

• R
• RStudio
• Seurat
• SeuratWrappers
• SingleR
• Celldex
• Harmony