Cytoscape
Trainers: Richard White
Overview: This session introduces Cytoscape, an open source software project for integrating biomolecular interaction networks with high-throughput expression data and explains how to use Cytoscape, ClueGO and Enrichment Map for visualisation purposes.
Learning outcomes:
By the end of this session you will be able to:
- Use Cytoscape, ClueGo and Enrichment Map to visualise biological networks
- Identify various options available in Cytoscape for visualising biological networks
Materials:
- Presentation slides
- Platform: https://funcgen2022.buschlab.org/
- Article
- File Amp.edges.txt
- File Amp.nodes.txt
- File Amp.sif
- File Amp.topgo.gmt
- File Oxy.topgo.gmt
- File Amp.BP.topgo.sig.tsv
- File Oxy.BP.topgo.sig.tsv
- Script Amp.de.network.R