Examples

BoolDog is a Python library for working with Boolean networks. It provides a simple and intuitive interface for creating, manipulating, and analysing Boolean networks.

For further details, see the jupyter notebooks in the tutorials folder of the repository:

tutorials/tutorial-basic.ipynb

For basic usage of BoolDog.

• BoolDog basic tutorial
• Toy example
• Boolean simulation
  • State transition graph
  • Stable states
• Continous simulation
  • Continous simulation with an event
  • Save simulation results

tutorials/tutorial-advanced.ipynb

For more advanced usage of BoolDog.

• BoolDog features tutorial
• Fetch a model from BioModels
• Import SBML-qual model
• Load into Cytoscape
• Boolean dynamics
  • Case (i)
  • Case (ii)
  • Create animation from Boolean simulation
• Semi-quantative ODE simulations
• Continous simulation with an event
• Modify the Boolean network
• Export the Boolean network
  • BNET format
  • SBML-qual
• As a NetworkX network