Python interface

Python

• Installation
  • Short guide
  • Installation on Linux
  • Installation on OSX
  • Installation on Windows
  • Further topics
• Examples
  • Getting Started in AMICI
  • SBML import, observation model, sensitivity analysis, data export and visualization
  • Using PEtab
  • PEtab 2.0 import
  • AMICI Python example “Experimental Conditions”
  • Steady-state computation in AMICI
  • Debugging simulation failures
  • Speeding up model import and simulation - with a focus on large models
  • AMICI & JAX
  • Simulating AMICI models using JAX
  • AMICI Python example “splines”
• Usage
  • Model definition
  • Environment variables affecting model import
  • Miscellaneous
• Caveats
  • Sensitivity analysis
  • Steady states
  • Discontinuities
• FAQ
• API reference
  • amici
  • amici.importers.sbml
  • amici.importers.sbml.splines
  • amici.importers.pysb
  • amici.importers.bngl
  • amici.importers.antimony
  • amici.importers.petab
  • amici.importers.petab.v1
  • amici.importers.utils
  • amici.sim.jax
  • amici.sim.sundials
  • amici.sim.sundials.plotting
  • amici.sim.sundials.gradient_check
  • amici.sim.sundials.petab
  • amici.sim.sundials.petab.v1
  • amici.adapters.fiddy