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    14 repositories

    • HackathonEBM

      Public
      Jupyter Notebook
      •1•4•0•0•Updated Nov 24, 2025Nov 24, 2025

    • inverse_folding_free_energies

      Public
      Code for the "Zero-shot protein stability prediction by inverse folding models: a free energy interpretation" paper.
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •0•1•0•0•Updated Oct 24, 2025Oct 24, 2025

    • poli

      Public
      A library of discrete objectives
      Python
      •
      MIT License
      •1•23•55•4•Updated Oct 5, 2025Oct 5, 2025

    • poli-docs

      Public
      Documentation for poli and poli-baselines
      0•5•6•2•Updated Sep 28, 2025Sep 28, 2025

    • poli-baselines

      Public
      A collection of objective functions and black box optimization algorithms related to proteins and small molecules
      Python
      •
      MIT License
      •5•7•16•4•Updated Mar 3, 2025Mar 3, 2025

    • hdbo_benchmark

      Public
      Code for "A survey and benchmark of high-dimensional Bayesian optimization of discrete sequences"
      Python
      •1•16•3•1•Updated Feb 24, 2025Feb 24, 2025

    • BEND

      Public
      Benchmarking DNA Language Models on Biologically Meaningful Tasks
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •20•1•1•0•Updated Oct 31, 2024Oct 31, 2024

    • poli-assets

      Public
      Assets and datasets for `poli` and `poli-baselines`
      0•0•0•0•Updated Sep 12, 2024Sep 12, 2024

    • protein_regression

      Public
      The codebase to replicate the analysis of "A systematic analysis of regression models for protein engineering" (2024).
      benchmarkmachine-learningcomputational-biologyuncertainty-quantification
      Jupyter Notebook
      •
      MIT License
      •2•5•0•0•Updated Jun 12, 2024Jun 12, 2024

    • corel

      Public
      Python
      •
      MIT License
      •1•3•4•0•Updated Apr 12, 2024Apr 12, 2024

    • stochman

      Public
      Algorithms for computations on random manifolds made easier
      pythonmachine-learningpytorchmanifoldriemannian-geometry
      Python
      •
      Apache License 2.0
      •10•94•10•0•Updated Dec 4, 2023Dec 4, 2023

    • .github

      Public
      0•1•0•0•Updated Aug 18, 2023Aug 18, 2023

    • meaningful-protein-representations

      Public
      Jupyter Notebook
      •
      BSD 3-Clause "New" or "Revised" License
      •7•110•4•0•Updated Mar 7, 2022Mar 7, 2022

    • torchplot

      Public
      Plotting pytorch tensors made easy!
      Python
      •
      Apache License 2.0
      •1•15•0•0•Updated Jan 28, 2021Jan 28, 2021