Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models and training/task utilities. (ICLR 2024)
☆279Apr 27, 2025Updated last year
Alternatives and similar repositories for ProteinWorkshop
Users that are interested in ProteinWorkshop are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Awesome Protein Representation Learning☆684Nov 16, 2024Updated last year
- Protein structure datasets for machine learning.☆116Apr 22, 2025Updated last year
- Fast protein backbone generation with SE(3) flow matching.☆329Jul 19, 2024Updated 2 years ago
- Protein Graph Library☆1,197Oct 12, 2026Updated last week
- The official implementation of the NeurIPS'23 paper ProteinInvBench: Benchmarking Protein Design on Diverse Tasks, Models, and Metrics☆207Oct 14, 2026Updated last week
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- FoldFlow: SE(3)-Stochastic Flow Matching for Protein Backbone Generation☆300Dec 10, 2024Updated last year
- GearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)☆330Jun 13, 2025Updated last year
- Versatile computational pipeline for processing protein structure data for deep learning applications.☆283Feb 14, 2024Updated 2 years ago
- Saprot: Protein Language Model with Structural Alphabet (AA+3Di)☆640Mar 8, 2026Updated 7 months ago
- Bilingual Language Model for Protein Sequence and Structure☆326Mar 6, 2026Updated 7 months ago
- ☆236Mar 2, 2024Updated 2 years ago
- ESM-GearNet for Protein Structure Representation Learning (https://arxiv.org/abs/2303.06275)☆116Oct 23, 2023Updated 2 years ago
- Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"☆137Nov 19, 2025Updated 11 months ago
- ☆261Jul 31, 2024Updated 2 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)☆90Apr 21, 2026Updated 6 months ago
- Joint embedding of protein sequence and structure with discrete and continuous compressions of protein folding model latent spaces. http:…☆155Apr 16, 2025Updated last year
- Diffusion-based all-atom protein generative model.☆239Aug 27, 2025Updated last year
- Implementation for SE(3) diffusion model with application to protein backbone generation☆426Jul 3, 2023Updated 3 years ago
- AlphaFold Meets Flow Matching for Generating Protein Ensembles☆547Mar 22, 2026Updated 6 months ago
- Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion☆59May 6, 2024Updated 2 years ago
- Official repository for the ProteinGym benchmarks☆478Mar 25, 2026Updated 6 months ago
- Compressing protein structures effectively with torsion angles☆198Sep 7, 2026Updated last month
- Diffusion models of protein structure; trigonometry and attention are all you need!☆568Sep 9, 2026Updated last month
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- ☆121Dec 7, 2022Updated 3 years ago
- A generative model for programmable protein design☆835Oct 13, 2026Updated last week
- A geometry-complete SE(3)-equivariant perceptron network (GCPNet) for 3D graphs. (Bioinformatics)☆56Apr 20, 2025Updated last year
- ✌🏻 Antigen-Specific Antibody Design and Optimization with Diffusion-Based Generative Models for Protein Structures (NeurIPS 2022)☆370Jun 29, 2023Updated 3 years ago
- 🧬 Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2…☆97Sep 29, 2026Updated 3 weeks ago
- ☆220Sep 24, 2024Updated 2 years ago
- EigenFold: Generative Protein Structure Prediction with Diffusion Models☆179Apr 6, 2023Updated 3 years ago
- ☆256May 22, 2023Updated 3 years ago
- Implementation of DiffDock-PP: Rigid Protein-Protein Docking with Diffusion Models in PyTorch (ICLR 2023 - MLDD Workshop)☆245Dec 29, 2023Updated 2 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Structure-conditioned masked language modeling for protein sequence design☆75Jan 31, 2024Updated 2 years ago
- Proteina is a new large-scale flow-based protein backbone generator that utilizes hierarchical fold class labels for conditioning and rel…☆280Jul 24, 2025Updated last year
- An all-atom protein structure dataset for machine learning.☆365Mar 16, 2024Updated 2 years ago
- Making Protein Design accessible to all via Google Colab!☆947Oct 14, 2026Updated last week
- Ankh: Optimized Protein Language Model☆250Jun 16, 2025Updated last year
- Dataset and package for working with protein-protein interactions in 3D☆110Sep 19, 2026Updated last month
- This repository houses all the scripts and notebooks utilized for generating, analyzing, and validating the mdCATH dataset. Some user ex…☆65Dec 16, 2025Updated 10 months ago