jiaqingxie / DeepProteinLinks
Deep Learning Library and Benchmark for Protein Sequence Learning (Bioinformatics 2025)
☆31Updated 2 months ago
Alternatives and similar repositories for DeepProtein
Users that are interested in DeepProtein are comparing it to the libraries listed below
Sorting:
- Efficient implementatin of ESM family.☆67Updated last week
- Generating and scoring novel enzyme sequences with a variety of models and metrics☆70Updated 2 months ago
- ☆38Updated 11 months ago
- Fast deep learning methods for large-scale protein-protein interaction screening☆51Updated 3 weeks ago
- The official implementation of DiffAbXL benchmarked in the paper "Exploring Log-Likelihood Scores for Ranking Antibody Sequence Designs",…☆83Updated 2 months ago
- Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"☆117Updated 5 months ago
- Code for humanization of antibody and nanobody☆49Updated 9 months ago
- ☆61Updated last year
- Official implementation of Generative Diffusion Models for Antibody Design, Docking, and Optimization.☆60Updated last year
- Zero-shot prediction of mutation effects on protein function with multimodal deep representation learning☆65Updated 2 weeks ago
- Metrics for our protein design competitions.☆35Updated 9 months ago
- Target Sequence-Conditioned Generation of Peptide Binders via Masked Language Modeling☆80Updated 2 weeks ago
- Structure-based self-supervised learning enables ultrafast prediction of stability changes upon mutations☆65Updated last month
- Aligning protein generative models with experimental fitness☆103Updated 3 weeks ago
- Active Learning-Assisted Directed Evolution for Protein Engineering☆65Updated 9 months ago
- ☆65Updated 10 months ago
- ☆28Updated last month
- This is the official code repository for the paper NeurIPS 2024 spotlight paper "Kermut: Composite kernel regression for protein variant …☆32Updated 3 weeks ago
- ☆70Updated 5 months ago
- PLM based active learning model for protein engineering☆82Updated last year
- Contrastive learning harmonizing protein language models and natural language models☆33Updated last year
- Sequence-Structure-Surface Model for Protein Fitness Prediction (S3F)☆43Updated 8 months ago
- This is the official repository of paper - GeoAB: Towards Realistic Antibody Design and Reliable Affinity Maturation (ICML2024)☆40Updated last year
- Learning the language of protein-protein interactions☆90Updated last week
- S-PLM: Structure-aware Protein Language Model via Contrastive Learning between Sequence and Structure☆69Updated 2 months ago
- Making Protein Modeling Accessible to All Biologists☆118Updated this week
- Structure-conditioned masked language modeling for protein sequence design☆69Updated last year
- ☆74Updated last week
- RAG-ESM is a retrieval-augmented framework that allows to condition pretrained ESM2 protein language models on homologous sequences☆23Updated last week
- Code of “Multi-Modal Deep Learning Enables Ultrafast and Accurate Annotation of Enzymatic Active Sites”☆39Updated 5 months ago