This is the GitHub organization of the Hasenauer Lab at University of Bonn, Germany.
For our research in computational biology, we developed a number of tools, mostly around simulation of dynamical models and parameter inference.
The highlights are:
- pypesto for parameter estimation in Python
- PEtab for specifying parameter estimation problems in systems biology in an efficient and interoperable manner
- AMICI for scalable simulation and sensitivity analysis (Python / C++)
- pyABC for distributed and scalable ABC-SMC (Approximate Bayesian Computation - Sequential Monte Carlo) for parameter estimation of complex stochastic models (Python)