Usage - HelikarLab/ode-app GitHub Wiki
Please visit http://kinode.herokuapp.com/ to use the application.
General functions
Import a SBML model
Only .sbml/.xml files supported
Use a saved model
Model Tab
View Reactions/Species of a model
Click on a reaction/specie to view it on the info panel.
View the model visualized in a network graph
Drag and zoom on the graph panel. You can also switch the compartments to display compartment-wise reactions and species.
- Blue Circles -> Specie Nodes
- Red Circles -> Reaction Nodes
- Green line -> Reactant Edge
- Yellow line -> Product Edge
- Dotted line -> Reversible reactions
Save a model
Saving a model stores it in the database which will let you directly fetch it later without doing an import.
Simulation Tab
Perform a simple simulation
Follow the gif 😉. All simulations are governed by Kinetic Laws.
View the result in the plot with additional features
Play around with the plot panel.