p-koo / evoaug
Evolution-inspired data augmentations for PyTorch-based models for regulatory genomics
☆21Updated last year
Alternatives and similar repositories for evoaug
Users that are interested in evoaug are comparing it to the libraries listed below
Sorting:
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 3 months ago
- ☆18Updated last year
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆30Updated last month
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆39Updated 7 months ago
- a framework for predicting global protein-protein interaction networks from dynamic mass spec data☆24Updated last year
- Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"☆18Updated 10 months ago
- surrogate quantitative interpretability for deepnets☆21Updated last month
- ☆34Updated 2 weeks ago
- For fine-tuning Enformer using paired WGS & gene expression data☆15Updated last week
- ☆24Updated 2 weeks ago
- Genomic sequence preprocessing toolkit☆12Updated last week
- Jax code for functional genomics ML☆13Updated 2 months ago
- Computational Optimization of DNA Activity (CODA)☆58Updated last month
- Interpretable splicing model☆20Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆42Updated 5 months ago
- Interpretation by Deep Generative Masking for Biological Sequences☆37Updated 3 years ago
- Create cell sentences from sequencing data☆22Updated 9 months ago
- Generalizable AI predicts immunotherapy outcomes across cancers and treatments☆23Updated last week
- Evaluating genomic sequence models for explaining personalized expression variation☆19Updated last year
- Cross-protein transfer learning for variant effect prediction☆20Updated last year
- Knowledge-primed neural networks☆36Updated 2 years ago
- ☆22Updated last year
- ☆26Updated 2 weeks ago
- Dataloader for applying sequence models to personalized genomics☆25Updated this week
- Sequential Optimal Experimental Design of Perturbation Screens Guided by Multimodal Priors☆40Updated 11 months ago
- A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input ge…☆20Updated this week
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆48Updated 3 weeks ago
- Arnie-based DegScore tool.☆25Updated 2 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆63Updated 2 years ago
- Toolset for training quantitative sequence to function models.☆23Updated last year