Official repository of "ODesign: A World Model for Biomolecular Interaction Design"

ProCEDiS: a state-annotation-free framework to generate compact, diverse protein conformational ensembles via MSA recombination, AlphaFold2, and short MD.

Codebase of the paper "Aligning Protein Conformation Ensemble Generation with Physical Feedback" (ICML 2025)

Conformational sampling for highly flexible proteins

A flow matching model for generating conformational ensembles of protein backbones.

Modelling protein conformations with Alphafold3

Predict multiple protein conformations using sequence clustering and AlphaFold2.

User guides for PDBe-KB pages

Structure prediction of alternative protein conformations

Code for designing biased protein states

A cheap but strong RAG framework.

omo; the best agent harness - previously oh-my-opencode

Collection of PhD Advice Links

Lifespan, gestation time, sexual maturity time, tissue, species etc. predictors built for Mammalian DNA methylation data

AlphaSync protein structure processing pipeline

GFlowNet library specialized for graph & molecular data

GNEprop is a graph neural network-based model to predict antibacterial activity from molecular structures in virtual screening settings.

OpenScope databook: a collaborative, versioned, data-centric collection of foundational analyses for reproducible systems neuroscience 🐁🧠🔬🖥️📈

NEURON Simulator

Inference code for scalable emulation of protein equilibrium ensembles with generative deep learning

A tool for automated uploading and version management of scientific data to Zenodo

Code for Inception Loop 2019 Paper

Skeleton querying and retrieval service