lcamillo / CpGPTLinks
CpGPT: a Foundation Model for DNA Methylation.
☆58Updated last month
Alternatives and similar repositories for CpGPT
Users that are interested in CpGPT are comparing it to the libraries listed below
Sorting:
- A Transformer-based model for read-level DNA methylation pattern identification and tumour deconvolution☆38Updated 7 months ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆48Updated this week
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 7 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆70Updated 2 years ago
- Analyses related to the Borzoi paper.☆22Updated last month
- code to run sei and obtain sei and sequence class predictions☆109Updated 2 years ago
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆43Updated last month
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆81Updated 2 weeks ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆30Updated 9 months ago
- SpliceTransformer(SpTransformer) is a deep learning tool to predict tissue specific splicing site from pre-mRNA sequence☆30Updated 11 months ago
- Predicting gene expression levels from genomic sequences☆54Updated 5 years ago
- For fine-tuning Enformer using paired WGS & gene expression data☆23Updated 2 months ago
- Knowledge-primed neural networks☆38Updated 2 years ago
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆49Updated last week
- Machine learning methods for DNA sequence analysis.☆56Updated 2 months ago
- Computational Optimization of DNA Activity (CODA)☆64Updated 6 months ago
- ☆24Updated last year
- ACTIONet single-cell analysis framework☆42Updated last year
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated last year
- Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …☆55Updated 5 months ago
- ☆26Updated 6 months ago
- APA Regression Net - Predict and Engineer Alternative Polyadenylation☆39Updated 4 years ago
- ☆67Updated 11 months ago
- Saluki, a method to predict mRNA half-lives from sequence☆25Updated 3 years ago
- Dataloader for applying sequence models to personalized genomics☆27Updated last week
- ☆80Updated 4 months ago
- ☆24Updated last month
- Pipeline to run scE2G☆30Updated last week
- Tools for sgRNA calling in direct capture Perturb-seq data☆37Updated 2 years ago
- CellWhisperer bridges the gap between transcriptomics data and natural language, enabling intuitive interaction with scRNA-seq datasets☆63Updated 3 weeks ago