Genentech / polygraphLinks
Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of regulatory elements.
☆35Updated 5 months ago
Alternatives and similar repositories for polygraph
Users that are interested in polygraph are comparing it to the libraries listed below
Sorting:
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆72Updated this week
- ☆18Updated last year
- Computational Optimization of DNA Activity (CODA)☆60Updated 5 months ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated 9 months ago
- ☆41Updated last month
- Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"☆22Updated last year
- Machine learning methods for DNA sequence analysis.☆54Updated 2 weeks ago
- ☆75Updated 2 months ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 10 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 5 months ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆46Updated 11 months ago
- ☆18Updated last year
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆44Updated 9 months ago
- Knowledge-primed neural networks☆38Updated 2 years ago
- Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.☆19Updated this week
- Predicting gene expression levels from genomic sequences☆54Updated 5 years ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆29Updated 7 months ago
- Saluki, a method to predict mRNA half-lives from sequence☆25Updated 2 years ago
- TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TC…☆25Updated 2 years ago
- For fine-tuning Enformer using paired WGS & gene expression data☆22Updated 2 weeks ago
- ☆24Updated last year
- ☆17Updated 10 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆67Updated 2 years ago
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆27Updated 2 years ago
- ☆32Updated 7 months ago
- Efficient algorithms for designing orthogonal DNA sequence libraries☆13Updated 10 months ago
- ☆24Updated this week
- APA Regression Net - Predict and Engineer Alternative Polyadenylation☆39Updated 3 years ago
- Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"☆22Updated last year
- scooby: Modeling multi-modal genomic profiles from DNA sequence at single-cell resolution.☆32Updated last month