Repositories list

• tcr_antigen_design

  Public
  Jupyter Notebook

  •00 forks•1313 stars•00 issues•00 pull requests•Updated Aug 26, 2026Aug 26, 2026

• hermes_experiments

  Public
  code, data and results of experiments shown in the HERMES paper

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 10, 2026Aug 10, 2026

• hermes

  Public
  Python

  •

  MIT License

  •22 forks•1414 stars•00 issues•00 pull requests•Updated Aug 8, 2026Aug 8, 2026

• pasc

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 28, 2026Apr 28, 2026

• designimmune

  Public
  Studying information transmission in the adaptive immune response

  Jupyter Notebook

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Mar 24, 2026Mar 24, 2026

• foundry

  Public
  Central repository for biomolecular foundation models with shared trainers and pipeline components

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •178178 forks•11 star•00 issues•00 pull requests•Updated Jan 23, 2026Jan 23, 2026

• hpacker

  Public
  Jupyter Notebook

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated May 5, 2025May 5, 2025

• Holographic-VAE

  Public
  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 5, 2025May 5, 2025

• biophysics

  Public
  Jupyter Notebook

  •22 forks•22 stars•00 issues•00 pull requests•Updated Apr 7, 2025Apr 7, 2025

• zernikegrams

  Public
  Stand-alone library for protein preprocessing

  Python

  •

  MIT License

  •00 forks•22 stars•11 issue•00 pull requests•Updated Feb 14, 2025Feb 14, 2025

• protein_biophysics

  Public
  Collection of biophysical tools for manipulating proteins (e.g. pyrosetta)

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 5, 2024Nov 5, 2024

• protein_holography

  Public
  Code for holographic machine learning of proteins

  HTML

  •

  MIT License

  •44 forks•2525 stars•22 issues•22 pull requests•Updated Oct 29, 2024Oct 29, 2024

• dssp

  Public
  Application to assign secondary structure to proteins

  C++

  •

  BSD 2-Clause "Simplified" License

  •3333 forks•00 stars•00 issues•00 pull requests•Updated Oct 28, 2024Oct 28, 2024

• protein_holography-web

  Public
  Python

  •00 forks•55 stars•00 issues•00 pull requests•Updated Oct 2, 2024Oct 2, 2024

• ProteinMPNN-finetuning

  Public
  Code for the ProteinMPNN paper + fine-tuning functionalities

  Jupyter Notebook

  •

  MIT License

  •496496 forks•00 stars•00 issues•00 pull requests•Updated Aug 14, 2024Aug 14, 2024

• Working_memory

  Public
  Jupyter Notebook

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Dec 7, 2021Dec 7, 2021

• Tomoko

  Public
  Forward time simulator of genotypic evolution and fitness inference

  Julia

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Dec 1, 2021Dec 1, 2021

• HIVTreatmentOptimization

  Public
  Analysis of untreated patient sequences and viremia data for the purposes of optimizing passive-transfer bNAb therapy

  Mathematica

  •00 forks•22 stars•00 issues•00 pull requests•Updated Nov 24, 2021Nov 24, 2021

• EscapeSimulator

  Public
  Simulate the escape dynamics of HIV-1 against all your favorite antibody combinations

  Julia

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Nov 17, 2021Nov 17, 2021

• ImmuneMemoryDM

  Public
  analysis for Optimal evolutionary decision-making to store immune memory

  Jupyter Notebook

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated May 10, 2021May 10, 2021

• covid-bcr

  Public
  Analysis of BCR repertoires from covid-19 infections

  Jupyter Notebook

  •

  GNU General Public License v3.0

  •00 forks•66 stars•00 issues•00 pull requests•Updated Mar 19, 2021Mar 19, 2021