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  • Universtiy of Amsterdam
  • Amsterdam

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Heezch/README.md

Thor van Heesch

Computational scientist working at the intersection of molecular simulation, machine learning, and statistical mechanics. I focus on building software that other scientists can actually use and build on.

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Current Research

Flow Matching for Transition Path Sampling

Class-conditional generative models for identifying stable states in high-dimensional conformational landscapes.

Reinforcement Learning for Molecular Dynamics

RL-driven protocols for minimal-work non-equilibrium simulations and adaptive control of sampling trajectories.

Iterative Jarzynski Path Refinement

Free-energy path convergence through repeated non-equilibrium reweighting and trajectory refinement.

DNA Groove Specificity

Mechanistic origins of sequence recognition from minimal peptide motifs and multi-scale modelling.

Pinned Loading

  1. mdna mdna Public

    DNA structure generator and analysis tool written in python

    HTML 10 2

  2. capper capper Public

    Adds NME and ACE caps to protein pdbs based on chain number/id

    Python 1

  3. hbonds_protein-DNA hbonds_protein-DNA Public

    Python