Awesome

Differentiable Trajectory Reweighting

Reference implementation of the Differentiable Trajectory Reweighting (DiffTRe) method as implemented in the paper Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting.

If you're interested in a more up-to-date version of DiffTRe, feel free to check out chemtrain!

Getting started

The Jupyter notebooks provide a guided tour through the DiffTRe method (double_well.ipynb) as well as its application to realistic systems in diamond.ipynb and CG_Water.ipynb.

Installation

All dependencies can be installed locally with pip:

pip install .

However, this only installs a CPU version of Jax. If you want to enable GPU support, please overwrite the jaxlib version:

pip install --upgrade "jax[cuda111]" -f https://storage.googleapis.com/jax-releases/jax_releases.html

Requirements

The repository uses the following packages:

    MDAnalysis
    jax>=0.2.12
    jaxlib>=0.1.65
    jax-md==0.1.13
    optax
    dm-haiku>=0.0.4
    sympy>=1.5

The code was run with Python 3.6. The exact versions used in the paper are listed in requirements.txt. MDAnalysis is only used for loading of initial MD states and can be omitted in case of installation issues.

Contact

For questions, please contact stephan.thaler@tum.de.

Citation

Please cite our paper if you use DiffTRe, the trained models or this code in your own work:

@article{thaler_difftre_2021,
  title = {Learning neural network potentials from experimental data via Differentiable Trajectory Reweighting},
  author = {Thaler, Stephan and Zavadlav, Julija},
  journal={Nature Communications},
  volume={12},
  number={1},
  pages={6884--6884},
  doi={10.1038/s41467-021-27241-4}
  year = {2021}
}