Welcome to AMICI’s documentation!
Version: 0.29.0
Source code: https://github.com/AMICI-dev/amici
Python interface
Python
- Installation
- Examples
- Getting Started in AMICI
- SBML import, observation model, sensitivity analysis, data export and visualization
- Using PEtab
- AMICI Python example “Experimental Conditions”
- AMICI documentation example of the steady state solver logic
- 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”
- Spline implementation of JAK2-STAT5 signaling pathway
- Usage
- FAQ
- API reference
- amici
- amici.amici
- amici.sbml_import
- amici.pysb_import
- amici.bngl_import
- amici.petab
- amici.petab.conditions
- amici.petab.import_helpers
- amici.petab.parameter_mapping
- amici.petab.petab_import
- amici.petab.pysb_import
- amici.petab.sbml_import
- amici.petab.simulations
- amici.petab.simulator
- amici.petab_import
- amici.petab_import_pysb
- amici.petab_objective
- amici.petab_simulate
- amici.import_utils
- amici.jax
- amici.de_export
- amici.de_model
- amici.de_model_components
- amici.plotting
- amici.pandas
- amici.logging
- amici.gradient_check
- amici.parameter_mapping
- amici.conserved_quantities_demartino
- amici.conserved_quantities_rref
- amici.numpy
- amici.sbml_utils
- amici.splines
C++ interface
Matlab interface
MATLAB