Protein structure datasets for machine learning.
☆115Apr 22, 2025Updated last year
Alternatives and similar repositories for proteinshake
Users that are interested in proteinshake are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Benchmarking framework for protein representation learning. Includes a large number of pre-training and downstream task datasets, models …☆273Apr 27, 2025Updated last year
- Protein Structure Transformer (PST): Endowing pretrained protein language models with structural knowledge☆46Oct 17, 2024Updated last year
- Pytorch implementation for ICML 2024 paper Proteus: Exploring Protein Structure Generation for Enhanced Designability and Efficiency.☆90Jun 23, 2024Updated last year
- Approximate subgraph motif mining through learnable edge contraction.☆15Aug 3, 2023Updated 2 years ago
- Toolkit for structure-based deep learning on RNA.☆47May 13, 2026Updated 3 weeks ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- GearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)☆319Jun 13, 2025Updated 11 months ago
- Versatile computational pipeline for processing protein structure data for deep learning applications.☆279Feb 14, 2024Updated 2 years ago
- ☆215Sep 24, 2024Updated last year
- Joint Sequence-Structure Generation of Nucleic Acid and Protein Complexes with SE(3)-Discrete Diffusion☆60May 6, 2024Updated 2 years ago
- Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.☆64May 21, 2025Updated last year
- ☆13May 24, 2026Updated 2 weeks ago
- Saprot: Protein Language Model with Structural Alphabet (AA+3Di)☆604Mar 8, 2026Updated 3 months ago
- Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)☆52Dec 3, 2024Updated last year
- Official repository for the ProteinGym benchmarks☆433Mar 25, 2026Updated 2 months 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.
- Compressing protein structures effectively with torsion angles☆194Feb 10, 2026Updated 4 months ago
- Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)☆41Jul 9, 2023Updated 2 years ago
- Protein representation and design under a single training scheme☆24May 17, 2026Updated 3 weeks ago
- Sandbox for Deep-Learning based Computational Protein Design☆121Dec 11, 2025Updated 5 months ago
- Ankh: Optimized Protein Language Model☆247Jun 16, 2025Updated 11 months ago
- Lbster: Language models for Biological Sequence Transformation and Evolutionary Representation☆163Updated this week
- Multi-Scale Representation Learning on Proteins (NeurIPS 2021)☆49Jun 30, 2023Updated 2 years ago
- A comprehensive benchmark on the performances of multiple protein backbone generative models.☆69May 28, 2026Updated last week
- Generating and scoring novel enzyme sequences with a variety of models and metrics☆72Feb 21, 2026Updated 3 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ☆118Dec 7, 2022Updated 3 years ago
- Structure-conditioned masked language modeling for protein sequence design☆74Jan 31, 2024Updated 2 years ago
- Equivariant Scalar Fields for Molecular Docking with Fast Fourier Transforms☆31Dec 8, 2023Updated 2 years ago
- Protein structure diffusion model for unconditional protein generation and motif scaffolding☆192Jun 24, 2024Updated last year
- Protein Graph Library☆1,172May 25, 2026Updated 2 weeks ago
- 🧬 Advanced hybrid language model for directed protein evolution. (NeurIPS 2024)☆153Apr 10, 2026Updated 2 months ago
- Fast protein backbone generation with SE(3) flow matching.☆326Jul 19, 2024Updated last year
- Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"☆130Nov 19, 2025Updated 6 months ago
- Awesome Protein Representation Learning☆685Nov 16, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Code for the paper "OneProt: Towards Multi-Modal Protein Foundation Models"☆23Oct 31, 2025Updated 7 months ago
- Official code release for Ambient Protein Diffusion☆35Aug 30, 2025Updated 9 months ago
- A standardized protein design benchmark for motif-scaffolding problems☆79Jun 3, 2026Updated last week
- PINDER: The Protein INteraction Dataset and Evaluation Resource☆156Nov 15, 2024Updated last year
- Diffusion-based all-atom protein generative model.☆236Aug 27, 2025Updated 9 months ago
- An introductory workshop to protein language models☆17May 24, 2022Updated 4 years ago
- EigenFold: Generative Protein Structure Prediction with Diffusion Models☆179Apr 6, 2023Updated 3 years ago