Genentech / polygraphLinks
Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of regulatory elements.
☆38Updated 8 months ago
Alternatives and similar repositories for polygraph
Users that are interested in polygraph are comparing it to the libraries listed below
Sorting:
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆42Updated 2 months ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated last year
- ☆18Updated last year
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 8 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Updated 10 months ago
- Computational Optimization of DNA Activity (CODA)☆65Updated 8 months ago
- ☆81Updated 2 weeks ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆88Updated 3 weeks ago
- Knowledge-primed neural networks☆38Updated 2 years ago
- Machine learning methods for DNA sequence analysis.☆57Updated 3 months ago
- ☆18Updated last year
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆71Updated 2 years ago
- ☆34Updated 10 months ago
- ☆42Updated 4 months ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆50Updated last year
- ☆18Updated last year
- ☆25Updated 2 years ago
- Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"☆22Updated last year
- ☆25Updated last year
- ☆24Updated 2 months ago
- TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TC…☆25Updated 3 years ago
- Toolset for training quantitative sequence to function models.☆23Updated last year
- Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.☆21Updated 2 months ago
- Dataloader for applying sequence models to personalized genomics☆27Updated last week
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆27Updated 2 years ago
- Analyses related to the Borzoi paper.☆23Updated 2 months ago
- Saluki, a method to predict mRNA half-lives from sequence☆27Updated 3 years ago
- For fine-tuning Enformer using paired WGS & gene expression data☆23Updated 3 months ago
- Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks☆29Updated 2 weeks ago