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Gray Lab

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  1. IgFold IgFold Public

    Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies

    Python 340 62

  2. DL4Proteins-notebooks DL4Proteins-notebooks Public

    Colab Notebooks covering deep learning tools for biomolecular structure prediction and design

    Jupyter Notebook 291 37

  3. IgLM IgLM Public

    Generative Language Modeling for Antibody Design

    Python 135 26

  4. GeoDock GeoDock Public

    Flexible Protein-Protein Docking with a Multi-Track Iterative Transformer.

    Python 87 15

  5. AlphaRED AlphaRED Public

    AlphaFold-initiated replica exchange protein docking

    Python 64 11

  6. FLAb FLAb Public

    Fitness landscapes for antibodies

    Python 55 11

Repositories

Showing 10 of 15 repositories
  • DFMDock Public

    DFMDock (Denoising Force Matching Dock), a diffusion model that unifies sampling and ranking within a single framework.

    Graylab/DFMDock’s past year of commit activity
    Python 28 MIT 4 1 0 Updated Jan 12, 2025
  • DL4Proteins-notebooks Public

    Colab Notebooks covering deep learning tools for biomolecular structure prediction and design

    Graylab/DL4Proteins-notebooks’s past year of commit activity
    Jupyter Notebook 291 37 0 1 Updated Dec 20, 2024
  • MaskedProteinEnT Public
    Graylab/MaskedProteinEnT’s past year of commit activity
    Python 11 4 0 2 Updated Dec 2, 2024
  • IgLM Public

    Generative Language Modeling for Antibody Design

    Graylab/IgLM’s past year of commit activity
    Python 135 26 4 0 Updated Oct 5, 2024
  • AlphaRED Public

    AlphaFold-initiated replica exchange protein docking

    Graylab/AlphaRED’s past year of commit activity
    Python 64 MIT 11 7 3 Updated Aug 14, 2024
  • GeoDock Public

    Flexible Protein-Protein Docking with a Multi-Track Iterative Transformer.

    Graylab/GeoDock’s past year of commit activity
    Python 87 MIT 15 6 0 Updated Jul 29, 2024
  • MPDock Public

    This repository contains the dataset of 29 transmembrane protein complexes of different rigidity along with their unbound protein structure. Additionally, there are scripts to submit relaxing and docking complexes given there unbound monomer structures.

    Graylab/MPDock’s past year of commit activity
    Python 3 MIT 0 0 0 Updated Jul 5, 2024
  • FLAb Public

    Fitness landscapes for antibodies

    Graylab/FLAb’s past year of commit activity
    Python 55 11 4 0 Updated Apr 17, 2024
  • Implicit-Membrane-Energy-Function-Benchmark Public

    This is a set of scientific benchmark tests for evaluating membrane protein modeling energy functions. The test probe an energy function's ability to capture membrane protein orientation, stability, sequence, and structure. The methods are described in detail in the citations below.

    Graylab/Implicit-Membrane-Energy-Function-Benchmark’s past year of commit activity
    Scala 1 MIT 0 0 0 Updated Jan 19, 2024
  • IgFold Public

    Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies

    Graylab/IgFold’s past year of commit activity
    Python 340 62 20 1 Updated Sep 3, 2023
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