All-atom inverse protein folding through discrete flow matching (ICML2025)

arXiv LaTeX Cleaner: Easily clean the LaTeX code of your paper to submit to arXiv

Official implememtation of CREPE: Controlling diffusion with REPlica Exchange

Latents-based conformational control in OpenFold3.

Official repository for IDiom

Terminal protein structure viewer — interactive 3D visualization of PDB/mmCIF structures with cartoon ribbons, braille rendering, and Sixel/Kitty graphics

The official implementation of the ICLR'23 paper PiFold: Toward effective and efficient protein inverse folding.

Joint sequence and structure generation with RoseTTAFold sequence space diffusion

Code for the DISCO model: General Multimodal Protein Design Enables DNA-Encoding of Chemistry

A simplified implementation of DSSP algorithm for PyTorch and NumPy

Updated Protpardelle models with more robust motif scaffolding and multichain support

A generative model for programmable protein design

Metrics to evaluate distributional coverage of generative models of protein structures.

Potts model-based protein sequence design

Official repository of PXDesign

code for phosphorylation switch design

PyTorch implementation for Score-Based Generative Modeling through Stochastic Differential Equations (ICLR 2021, Oral)

AI agents running research on single-GPU nanochat training automatically

Code for “Enhancing Diffusion-Based Sampling with Molecular Collective Variables"

Add a tqdm progress bar to your JAX scans and loops.

A framework for training energy-based diffusion models for sampling and energy estimation.

My Workflows

CryoBoltz code for protein structure prediction with cryo-EM guidance. NeurIPS 2025.

Predict the binding affinity of protein-protein complexes from structural data

BoltzGen: Toward Universal Binder Design

A fully open source biomolecular structure prediction model based on AlphaFold3