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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 250 94

  2. software-development software-development Public

    A primer on software development best practices for computational chemistry

    265 78

  3. openmmtools openmmtools Public

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

    Python 270 85

  4. modelforge modelforge Public

    Infrastructure to implement and train NNPs

    Python 14 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 231 27

  6. mtenn mtenn Public

    Modular Training and Evaluation of Neural Networks

    Python 7 2

Repositories

Showing 10 of 278 repositories
  • pale Public

    The PALE: The Protein Alchemical Landscape Explorer

    choderalab/pale’s past year of commit activity
    Python 2 MIT 1 1 1 Updated Apr 24, 2025
  • asapdiscovery-sars-retrospective Public

    Repository to store the code used for a paper exploring methods for SARS-2 Mpro Docking.

    choderalab/asapdiscovery-sars-retrospective’s past year of commit activity
    Jupyter Notebook 0 CC0-1.0 0 1 1 Updated Apr 24, 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 2 MIT 0 0 1 Updated Apr 23, 2025
  • harbor Public

    A home for docking evaluation and assessment

    choderalab/harbor’s past year of commit activity
    Python 2 MIT 0 1 2 Updated Apr 23, 2025
  • modelforge Public

    Infrastructure to implement and train NNPs

    choderalab/modelforge’s past year of commit activity
    Python 14 MIT 5 14 5 Updated Apr 23, 2025
  • broad-spectrum-asap-paper Public

    Scripts and input files for structure-based prediction of affinity across the coronavirus family.

    choderalab/broad-spectrum-asap-paper’s past year of commit activity
    Jupyter Notebook 0 CC0-1.0 0 0 1 Updated Apr 22, 2025
  • asapdiscovery Public

    Toolkit for open antiviral drug discovery by the ASAP Discovery Consortium

    choderalab/asapdiscovery’s past year of commit activity
    Python 0 MIT 0 17 5 Updated Apr 22, 2025
  • openmmtools Public

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

    choderalab/openmmtools’s past year of commit activity
    Python 270 MIT 85 226 25 Updated Apr 22, 2025
  • knowledge-base Public

    A repository for Chodera Lab members to get up to speed on the foundational knowledge necessary for getting the most out of the lab!

    choderalab/knowledge-base’s past year of commit activity
    TeX 0 MIT 0 0 0 Updated Apr 21, 2025
  • mtenn Public

    Modular Training and Evaluation of Neural Networks

    choderalab/mtenn’s past year of commit activity
    Python 7 MIT 2 9 4 Updated Apr 20, 2025