Genentech / regLM
Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.
☆36Updated 4 months ago
Alternatives and similar repositories for regLM:
Users that are interested in regLM are comparing it to the libraries listed below
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆28Updated last month
- ☆27Updated last month
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆38Updated last month
- Computational Optimization of DNA Activity (CODA)☆55Updated last month
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆35Updated 3 months ago
- Dataloader for applying sequence models to personalized genomics☆22Updated this week
- The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)☆34Updated last year
- Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"☆17Updated 7 months ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆34Updated 3 months ago
- Evaluating genomic sequence models for explaining personalized expression variation☆19Updated last year
- Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"☆17Updated 7 months ago
- ☆26Updated 3 weeks ago
- Machine learning methods for DNA sequence analysis.☆37Updated last week
- A fast dataloader for bigwig files made for machine learning☆26Updated 4 months ago
- APA Regression Net - Predict and Engineer Alternative Polyadenylation☆39Updated 3 years ago
- ☆18Updated 11 months ago
- Knowledge-primed neural networks☆35Updated last year
- Annotated sequence data☆11Updated 2 weeks ago
- ☆72Updated last year
- a framework for predicting global protein-protein interaction networks from dynamic mass spec data☆23Updated 11 months ago
- ☆28Updated last month
- ☆20Updated last year
- Toolset for training quantitative sequence to function models.☆21Updated 11 months ago
- Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.☆17Updated last month
- TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TC…☆23Updated 2 years ago
- ☆18Updated 6 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆28Updated last month
- Code for "T Cell Receptor Specificity Prediction with Bimodal Attention Networks" (https://doi.org/10.1093/bioinformatics/btab294, ISMB 2…☆29Updated last year
- code to run sei and obtain sei and sequence class predictions☆97Updated 2 years ago
- Diverse Genomic Embedding Benchmark☆39Updated 4 months ago