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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 246 92

  2. software-development software-development Public

    A primer on software development best practices for computational chemistry

    263 79

  3. openmmtools openmmtools Public

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

    Python 260 83

  4. modelforge modelforge Public

    Infrastructure to implement and train NNPs

    Python 13 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 224 26

  6. mtenn mtenn Public

    Modular Training and Evaluation of Neural Networks

    Python 6 1

Repositories

Showing 10 of 276 repositories
  • 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 1 MIT 0 0 0 Updated Feb 12, 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 0 Updated Feb 12, 2025
  • harbor Public

    A home for docking evaluation and assessment

    choderalab/harbor’s past year of commit activity
    Python 2 MIT 0 1 1 Updated Feb 12, 2025
  • openmmtools Public

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

    choderalab/openmmtools’s past year of commit activity
    Python 260 MIT 83 223 25 Updated Feb 13, 2025
  • choderalab/fluorescence-assay’s past year of commit activity
    Python 0 MIT 0 0 4 Updated Feb 7, 2025
  • fragment-fold Public

    The goal of this repository is to house the scripts and data for taking a fragment screen from the Diamond Light Source and generating a modeled fragment screen for a set of related proteins

    choderalab/fragment-fold’s past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Feb 7, 2025
  • machine_learned_potential_experiments Public

    Perform experiments with modelforge

    choderalab/machine_learned_potential_experiments’s past year of commit activity
    Shell 0 MIT 0 0 0 Updated Feb 6, 2025
  • modelforge Public

    Infrastructure to implement and train NNPs

    choderalab/modelforge’s past year of commit activity
    Python 13 MIT 5 17 6 Updated Feb 5, 2025
  • mtenn Public

    Modular Training and Evaluation of Neural Networks

    choderalab/mtenn’s past year of commit activity
    Python 6 MIT 1 5 3 Updated Feb 3, 2025
  • status Public
    choderalab/status’s past year of commit activity
    3 0 2 1 Updated Feb 1, 2025