Course content

These materials were part of the live ‘Single-Cell RNA-seq & Network Analysis using Galaxy and Cytoscape’ Course which happened in April 2021. Please refer to the course page and programme to check details about this live event and the original programme.

The content table below outlines the different sessions that were included in the course, as well as the format of the materials (slides/videos/practicals) and each session’s trainer. Either proceed through the materials using the arrows at the end of each page or pick your topic of interest from the table below to skip straight to it.

 Presentation slides –  View or download the slides

 Recorded lectures – Watch the lecture videos 

 Practicals – View or download the slides, exercises, datasets, analysis scripts and results

Format	Subject	Trainer
	Introduction to single cell RNA-seq technologies
	Introduction to single-cell RNA-seq	Kerstin Meyer
	Experimental design of single-cell studies	Kristina Kirschner
	Library generation overview	Wendi Bacon
	Pipeline overview	Wendi Bacon
	Applying scRNA-seq in research
	The local and systemic response to SARS-CoV-2 infection in children and adults	Kerstin Meyer
	Understanding complex cellular interactions in senescence using single-cell seq approaches	Kristina Kirschner
	Single-cell RNA seq analysis using Galaxy
	Introduction to Galaxy	Pablo Moreno
	From fasta to matrix	Jonathan Manning
	Pre-processing and batch correction	Zhichao Miao
	From matrix to UMAP	Wendi Bacon
	Clustering, annotation and trajectory interference tools for scRNA-seq data: a quick guide
	From UMAP to trajectories	Wendi Bacon
	Network analysis using Cytoscape
	Network analysis using Cytoscape	Scooter Morris
	Advanced network visualisation	Scooter Morris
	Cytoscape single-cell analysis	Scooter Morris