cannin/sysbiocancer2019

Tutorials for Pathway Commons (https://pathwaycommons.org) network analysis tools. Prepared for the Computational Systems Biology of Cancer course at Institut Curie

Network Analysis Tutorials: Computational Systems Biology of Cancer 2019: Institut Curie

This website pulls together installation for a number of network analysis tools related to Pathway Commons (http://pathwaycommons.org). Primary websites and documentation should be consulted for each tool.

Tools Covered

• sbgnvizShiny: https://github.com/cannin/sbgnvizShiny
• EnrichmentMap: Merico D, et al., 2010; Cytoscape plugin: https://www.baderlab.org/Software/EnrichmentMap
• CausalPath: https://github.com/PathwayAndDataAnalysis/causalpath
• NetBox: Cerami E, et al., 2010; netboxr

Running

1. Click the Launch Binder button at the top
2. Run the "main.R" script to retrieve the individual demo specific files
3. Run scripts for specific demos