Tutorials

From Symbiopedia

Our Tutorials

Software setup

• Installing Cytoscape with Plugins

• Getting Started with the SGD

• Importing a SBML file to Matlab

• Installing COBRA toolbox for MATLAB

Mathematical concepts

1. Math: Binary form of S - working through Palsson Chapter 7 with Matlab and COBRA to explore the connectivity matrix
2. Math: The Flux Balance Equation - expanding Palsson Chapter 6 section 1, introducing the fundamental equation of the constraint based approach (which I'm calling the "flux balance equation")
3. Math: The Fundamental Subspaces of S - Introducing the math behind Palsson Chapter 8

Other Tutorials

• Cytoscape - beginning and advanced tutorials from the cytoscape homepage