Introduction

Mission: make SBML simulations great again

The idea of sbmlsim is to provide a simple abstraction layer for running simulations with SBML models in python.

Simplicity

• make it easy to encode simple simulation experiments with a focus on numerical ODE simulations

Simulation

• timecourse simulations

• combined simulation experiments (combination of changes)

• parameter scans

• parameter sensitivity analysis

A simplified exchange language based on JSON is part of sbmlsim

Visualization

• interactive plots (altair)

Parallelization

• simple parallelization of multiple simulation, collection of results

Parameter fitting

• helpers for using model + data to run simulations on a cluster

Unit support