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  1. AstroAgents AstroAgents Public

    AstroAgents: Multi-Agent AI for Hypothesis Generation from Mass Spectrometry Data

    Python 15 2

  2. ProtoMech ProtoMech Public

    (ICML 2026) Official code repository for Protein Circuit Tracing via Cross-layer Transcoders

    Python 15 4

  3. LowNSAE LowNSAE Public

    Official code repository for Sparse Autoencoders for Low-N Protein Function Prediction and Design

    Python 7

  4. shap-zero shap-zero Public

    Pip package for amortized Shapley values and interactions in biological sequence models

    Python 7

  5. InteractionRecovery InteractionRecovery Public

    Official code repository for On Recovering Higher-order Interactions from Protein Language Models

    Jupyter Notebook 5

  6. shapzero shapzero Public

    Repository to reproduce experiments from SHAP zero Explains Biological Sequence Models with Near-zero Marginal Cost for Future Queries

    Python 5

Repositories

Showing 10 of 17 repositories
  • function-aware-masking Public

    Repo for "Learning Task-Specific Antibody Representations via Function-Aware Masking"

    amirgroup-codes/function-aware-masking's past year of commit activity
    Python 1 MIT 0 0 0 Updated Sep 1, 2026
  • GDL-Bench2026 Public
    amirgroup-codes/GDL-Bench2026's past year of commit activity
    0 0 0 0 Updated Aug 19, 2026
  • cryoSENSE Public

    (CVPR 2026) Compressive Sensing Enables High-throughput Microscopy with Sparse and Generative Priors (Diffusion Model) on the Protein Cryo-EM Image Manifold

    amirgroup-codes/cryoSENSE's past year of commit activity
    Python 3 Apache-2.0 1 0 0 Updated Jul 24, 2026
  • astra Public

    ASTRA : Autonomous Multi-Agent Reconstruction of Prebiotic Reaction Networks Reveals Organizational Features of Amino Acid Synthesis

    amirgroup-codes/astra's past year of commit activity
    Python 2 0 0 0 Updated Jul 10, 2026
  • ewht Public

    Pip package for computing the evolutionary Walsh-Hadamard Transform

    amirgroup-codes/ewht's past year of commit activity
    Python 0 MIT 0 0 0 Updated Jul 10, 2026
  • eWHT_expts Public

    Repository to reproduce experiments from Protein Fitness Landscapes Are Simpler Under Evolutionary Distributions

    amirgroup-codes/eWHT_expts's past year of commit activity
    Python 0 0 0 0 Updated Jul 5, 2026
  • ProGenMech Public

    Official code repository for Circuit Tracing in Autoregressive Protein Language Models

    amirgroup-codes/ProGenMech's past year of commit activity
    Python 0 Apache-2.0 0 0 0 Updated Jun 16, 2026
  • ProtoMech Public

    (ICML 2026) Official code repository for Protein Circuit Tracing via Cross-layer Transcoders

    amirgroup-codes/ProtoMech's past year of commit activity
    Python 15 Apache-2.0 4 0 0 Updated May 14, 2026
  • GOLF Public

    Official code repository for GOLF: A Generative AI Framework for Pathogenicity Prediction of Myocilin OLF Variants

    amirgroup-codes/GOLF's past year of commit activity
    Python 0 0 0 0 Updated Sep 30, 2025
  • shap-zero Public

    Pip package for amortized Shapley values and interactions in biological sequence models

    amirgroup-codes/shap-zero's past year of commit activity
    Python 7 MIT 0 0 0 Updated Sep 27, 2025
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