Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)
☆53Dec 3, 2024Updated last year
Alternatives and similar repositories for S3F
Users that are interested in S3F are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- This is the official code repository for the paper NeurIPS 2024 spotlight paper "Kermut: Composite kernel regression for protein variant …☆46Aug 5, 2025Updated last year
- Deconvolving mutation effects on protein stability and function with disentangled protein language models☆18May 15, 2026Updated 4 months ago
- Representation learning for protein functional site analysis☆17Aug 11, 2023Updated 3 years ago
- Protein Language Modeling beyond static folds reveals sequence-encoded flexibility☆37Feb 1, 2026Updated 7 months ago
- Zero-shot prediction of mutation effects on protein function with multimodal deep representation learning☆72Aug 13, 2025Updated last year
- 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.
- Code for Pre-training Protein Encoder via Siamese Sequence-Structure Diffusion Trajectory Prediction (https://arxiv.org/abs/2301.12068)☆41Jul 9, 2023Updated 3 years ago
- Meta in-context learning for protein fitness prediction☆21Feb 7, 2025Updated last year
- 🧬 Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2…☆97Jul 20, 2026Updated last month
- Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"☆136Nov 19, 2025Updated 10 months ago
- 🧬 Augmenting zero-shot mutant prediction by retrieval-based logits fusion. (ISMB/ECCB 2025)☆145Apr 25, 2026Updated 4 months ago
- Protein representation and design under a single training scheme☆24May 17, 2026Updated 4 months ago
- ☆42Mar 30, 2025Updated last year
- ☆13Apr 18, 2022Updated 4 years ago
- Code and model weights for PoET-2, a retrieval-augmented multimodel protein language model for protein sequence generation and representa…☆30Aug 20, 2025Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ESM-GearNet for Protein Structure Representation Learning (https://arxiv.org/abs/2303.06275)☆116Oct 23, 2023Updated 2 years ago
- Official repository of GENzyme☆66Nov 29, 2024Updated last year
- Utility scripts to generate and evaluate parametrically guided beta barrel protein backbone structures.☆13Nov 14, 2025Updated 10 months ago
- Graphormer Based Protein Sequence Design☆26Feb 2, 2024Updated 2 years ago
- Official repository for the ProteinGym benchmarks☆473Mar 25, 2026Updated 5 months ago
- ☆10Mar 8, 2024Updated 2 years ago
- Profluent-E1 family of Protein Encoder Models☆115Mar 11, 2026Updated 6 months ago
- FAPLM: A Drop-in Efficient Pytorch Implementation of Protein Language Models☆168Mar 28, 2026Updated 5 months ago
- "Rewriting protein alphabets with language models"☆26Jun 9, 2026Updated 3 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Protein structure datasets for machine learning.☆116Apr 22, 2025Updated last year
- Official repository of EnzymeFlow☆102Dec 7, 2024Updated last year
- CARE: a Benchmark Suite for the Classification and Retrieval of Enzymes☆48Jun 17, 2025Updated last year
- ProTrek: illuminating the Protein Universe through Trimodal Protein Language Model (Connecting text and protein)☆217May 15, 2026Updated 4 months ago
- A geometric foundation model for enzyme retrieval with evolutionary insights.☆103Jul 29, 2026Updated last month
- This is the offical codebase to reproduce and use EVOLVEpro, a model for in silico directed evolution of protein activities using few-sho…☆375Jun 11, 2025Updated last year
- ☆96May 29, 2025Updated last year
- Repository for Protein-Vec, a protein embedding mixture of experts model☆38Jan 24, 2024Updated 2 years ago
- Minimal AlphaFold☆56Aug 24, 2024Updated 2 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Pooling by PageRank Token Importance. This is a weighted average pooling method where the weights are derived from the internal attention…☆19Jun 11, 2025Updated last year
- ☆31Dec 12, 2024Updated last year
- Fast indexing and search of discontinuous motifs in protein structures☆216Jul 10, 2026Updated 2 months ago
- Saprot: Protein Language Model with Structural Alphabet (AA+3Di)☆634Mar 8, 2026Updated 6 months ago
- ☆42Mar 7, 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
- All-atom protein generation using latent diffusion, with compositional function and taxonomic prompts. http://bit.ly/plaid-proteins☆126May 27, 2025Updated last year