schumacherlab / STAPLERLinks
STAPLER (Shared TCR And Peptide Language bidirectional Encoder Representations from transformers) is a language model that uses a joint TCRab-peptide input to predict TCRab-peptide specificity.
☆28Updated 6 months ago
Alternatives and similar repositories for STAPLER
Users that are interested in STAPLER are comparing it to the libraries listed below
Sorting:
- python tools for TCR:peptide-MHC modeling and analysis☆82Updated last year
- Large language modeling applied to T-cell receptor (TCR) sequences.☆57Updated 3 years ago
- Deep-learning empowered prediction and generation of immunogenic epitopes for T cell immunity☆73Updated 2 years ago
- ☆20Updated 3 years ago
- HLA-I ligand predictor☆43Updated last month
- ERGO-II, an updated version of ERGO including more features for TCR-peptide binding prediction☆34Updated 3 years ago
- TCR validated database☆41Updated 5 months ago
- Fast AlphaFold-Multimer based pipeline for Protein-Protein Interaction (PPI) screening☆39Updated last year
- ☆45Updated 7 months ago
- ☆80Updated 2 years ago
- ☆12Updated last year
- HLA-II ligand predictor.☆45Updated 2 years ago
- Code repository of "Deep generative design of RNA family sequences"☆38Updated last year
- ☆25Updated last year
- Predicting immunogenic peptide recognized by TCR through ensemble deep learning☆17Updated last year
- ☆51Updated last year
- BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity☆56Updated last year
- VDJ assignment and antibody sequence annotation. Scalable from a single sequence to billions of sequences.☆43Updated 2 months ago
- CodonBert: a BERT-based architecture tailored for codon optimization using the cross-attention mechanism.☆40Updated last year
- Evolutionary velocity with protein language models☆94Updated 2 years ago
- ☆36Updated 9 months ago
- 📝 [Paper] TCRen: predicting TCR-peptide recognition based on residue-level pairwise statistical potential☆22Updated 3 weeks ago
- ☆91Updated last year
- Cross-protein transfer learning for variant effect prediction☆20Updated 2 years ago
- GraphPart, a data partitioning method for ML on biological sequences☆30Updated 2 years ago
- Code for "T Cell Receptor Specificity Prediction with Bimodal Attention Networks" (https://doi.org/10.1093/bioinformatics/btab294, ISMB 2…☆30Updated 3 months ago
- Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor☆50Updated last year
- surrogate quantitative interpretability for deepnets☆24Updated 2 months ago
- Python package and command line tool for epitope prediction☆52Updated last year
- RiboNN: predicting translation efficiencies from mRNA sequences☆39Updated 3 weeks ago