programmablebio / pepmlm
Target Sequence-Conditioned Generation of Peptide Binders via Masked Language Modeling
☆51Updated 8 months ago
Alternatives and similar repositories for pepmlm:
Users that are interested in pepmlm are comparing it to the libraries listed below
- ☆77Updated last month
- ☆65Updated 3 weeks ago
- Novel estimator for the change in stability upon point mutation in monomeric and multimeric proteins.☆45Updated 4 months ago
- Code for humanization of antibody and nanobody☆39Updated 4 months ago
- Active Learning-Assisted Directed Evolution for Protein Engineering☆46Updated 4 months ago
- ☆37Updated 3 months ago
- The official implementation of DiffAbXL benchmarked in the paper "Exploring Log-Likelihood Scores for Ranking Antibody Sequence Designs",…☆68Updated 5 months ago
- A benchmark for 3D biomolecular structure prediction models☆56Updated 3 months ago
- Official repository of GENzyme☆46Updated 4 months ago
- Generating and scoring novel enzyme sequences with a variety of models and metrics☆70Updated 3 months ago
- AlphaBind code + model accompanying pre-print☆49Updated 3 months ago
- Efficient manipulation of protein structures in Python☆53Updated 5 months ago
- ☆58Updated last year
- Structure-based self-supervised learning enables ultrafast prediction of stability changes upon mutations☆56Updated 2 months ago
- HyperMPNN ‒ A general strategy to design thermostable proteins learned from hyperthermophiles☆53Updated last month
- ☆43Updated 6 months ago
- An antibody-specific language model focusing on NGL prediction☆26Updated 7 months ago
- Deep learning framework for protein sequence design from a backbone scaffold that can leverage the molecular context including non-protei…☆39Updated 4 months ago
- Contrastive fitness learning: Reprogramming protein language models for low-N learning of protein fitness landscape☆28Updated 7 months ago
- Official implementation of Generative Diffusion Models for Antibody Design, Docking, and Optimization.☆57Updated last year
- The Patent and Literature Antibody Database (PLAbDab): an evolving reference set of functionally diverse, literature-annotated antibody s…☆25Updated 9 months ago
- Directed evolution of proteins in sequence space with gradients☆84Updated 8 months ago
- Graphinity: Equivariant Graph Neural Network Architecture for Predicting Change in Antibody-Antigen Binding Affinity☆30Updated last month
- Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer)☆53Updated 3 weeks ago
- ☆34Updated 6 months ago
- Aligning protein generative models with experimental fitness☆89Updated 5 months ago
- Extension of ThermoMPNN for double mutant predictions☆32Updated last month
- Controlling the usage of hydrophobic residues on AfDesign for binder peptide design with AlphaFold hallucination protocol☆31Updated last year
- Sidechain conditioning and modeling for full-atom protein sequence design☆91Updated last month
- 🧬 Augmenting zero-shot mutant prediction by retrieval-based logits fusion. (ISMB/ECCB 2025)☆49Updated this week