deweihu96 / SPACELinks
Repository for the paper: "SPACE: STRING proteins as complementary embeddings"
☆32Updated last month
Alternatives and similar repositories for SPACE
Users that are interested in SPACE are comparing it to the libraries listed below
Sorting:
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆89Updated last month
- The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)☆36Updated 2 years ago
- ☆15Updated 3 months ago
- Computational Optimization of DNA Activity (CODA)☆67Updated 9 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆44Updated 3 months ago
- ☆34Updated 11 months ago
- Large language modeling applied to T-cell receptor (TCR) sequences.☆57Updated 3 years ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆50Updated last year
- HLA-II ligand predictor.☆45Updated 2 years ago
- ☆18Updated last year
- ☆42Updated 5 months ago
- ERGO-II, an updated version of ERGO including more features for TCR-peptide binding prediction☆34Updated 3 years ago
- ☆14Updated last month
- Deep Learning the T Cell Receptor Binding Specificity of Neoantigen☆88Updated 3 years ago
- ☆97Updated 2 months ago
- ☆85Updated 2 years ago
- Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…☆115Updated 2 weeks ago
- Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"☆23Updated last year
- ☆22Updated 8 months ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆43Updated 6 months ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆38Updated 9 months ago
- code to run sei and obtain sei and sequence class predictions☆110Updated 3 years ago
- For fine-tuning Enformer using paired WGS & gene expression data☆23Updated 4 months ago
- ☆25Updated 4 months ago
- Knowledge-primed neural networks☆38Updated 2 years ago
- ☆89Updated 4 months ago
- MONET : MOdularising NEtwork Toolbox - https://doi.org/10.1093/bioinformatics/btaa236☆47Updated 4 years ago
- ☆25Updated 2 years ago
- ☆70Updated last week
- Scripts and datasets to reproduce the experiment of the paper "Exploring non-coding RNA functions with deep learning tools"☆16Updated 4 years ago