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@choderalab

Chodera lab // Memorial Sloan Kettering Cancer Center

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  1. pymbar pymbar Public

    Python implementation of the multistate Bennett acceptance ratio (MBAR)

    Python 286 94

  2. software-development software-development Public

    A primer on software development best practices for computational chemistry

    270 80

  3. openmmtools openmmtools Public

    A batteries-included toolkit for the GPU-accelerated OpenMM molecular simulation engine.

    Python 308 86

  4. modelforge modelforge Public

    Infrastructure to implement and train NNPs

    Python 21 5

  5. espaloma espaloma Public

    Extensible Surrogate Potential of Ab initio Learned and Optimized by Message-passing Algorithm 🍹https://arxiv.org/abs/2010.01196

    Python 255 28

  6. mtenn mtenn Public

    Modular Training and Evaluation of Neural Networks

    Python 8 2

Repositories

Showing 10 of 279 repositories
  • openmmtools Public

    A batteries-included toolkit for the GPU-accelerated OpenMM molecular simulation engine.

    choderalab/openmmtools’s past year of commit activity
    Python 308 MIT 86 229 26 Updated Dec 20, 2025
  • missense-kinase-toolkit Public

    A package to facilitate structure- and sequence-based ML for clinically relevant missense human kinase property prediction

    choderalab/missense-kinase-toolkit’s past year of commit activity
    Python 3 MIT 0 0 3 Updated Dec 17, 2025
  • drugforge Public

    Toolkit for open antiviral drug discovery by the Choderalab (formerly ASAP)

    choderalab/drugforge’s past year of commit activity
    Python 8 MIT 1 42 (5 issues need help) 10 Updated Dec 12, 2025
  • pale Public

    The PALE: The Protein Alchemical Landscape Explorer

    choderalab/pale’s past year of commit activity
    Jupyter Notebook 2 MIT 2 2 2 Updated Nov 18, 2025
  • modelforge Public

    Infrastructure to implement and train NNPs

    choderalab/modelforge’s past year of commit activity
    Python 21 MIT 5 15 4 Updated Nov 11, 2025
  • perses Public

    Experiments with expanded ensembles to explore chemical space

    choderalab/perses’s past year of commit activity
    Python 197 MIT 50 223 (4 issues need help) 7 Updated Oct 28, 2025
  • pymbar Public

    Python implementation of the multistate Bennett acceptance ratio (MBAR)

    choderalab/pymbar’s past year of commit activity
    Python 286 MIT 94 123 10 Updated Oct 16, 2025
  • espaloma-charge Public

    Standalone charge assignment from Espaloma framework.

    choderalab/espaloma-charge’s past year of commit activity
    Python 46 MIT 6 19 3 Updated Oct 10, 2025
  • ffsettings Public
    choderalab/ffsettings’s past year of commit activity
    Python 0 MIT 0 0 1 Updated Oct 6, 2025
  • choderalab/fluorescence-assay’s past year of commit activity
    Python 0 MIT 0 0 5 Updated Oct 6, 2025