AMOLF Theory Groups

A Julia simulation package with functions for running adaptive umbrella sampling Monte Carlo simulations of crosslinked actin rings.

Jupyter notebooks for modelling E. coli's chemotactic receptors, including variations of both the MWC and the Ising model. Important: the final simulations are in the notebook chemotaxis.ipynb

Reproduce the figures of 'Trade-offs between cost and information in cellular prediction'

This code simulates the bacterial cell cycle and is used to study the degree of synchrony of replication initiation in the bacterium E. coli.

Python package that implements the analytical model from "Constriction of actin rings by passive crosslinker".

Path Weight Sampling implementation for Langevin systems in presence of feedback

A program to simulate the sliding of crosslinked filaments, based on the code of Harmen Wierenga.