lcamillo / CpGPTLinks
CpGPT: a Foundation Model for DNA Methylation.
☆52Updated 2 weeks ago
Alternatives and similar repositories for CpGPT
Users that are interested in CpGPT are comparing it to the libraries listed below
Sorting:
- code to run sei and obtain sei and sequence class predictions☆109Updated 2 years ago
- A Transformer-based model for read-level DNA methylation pattern identification and tumour deconvolution☆37Updated 6 months ago
- ☆76Updated 2 months ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆30Updated 7 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 5 months ago
- Predicting gene expression levels from genomic sequences☆54Updated 5 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆67Updated 2 years ago
- Analyses related to the Borzoi paper.☆19Updated 3 months ago
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆47Updated last month
- Saluki, a method to predict mRNA half-lives from sequence☆25Updated 2 years ago
- ☆32Updated 7 months ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 10 months ago
- Machine learning methods for DNA sequence analysis.☆54Updated 3 weeks ago
- Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks☆29Updated 5 months ago
- ☆26Updated 5 months ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆73Updated last week
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆78Updated last year
- ☆24Updated last week
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆46Updated this week
- Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …☆51Updated 4 months ago
- ☆24Updated last year
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated 9 months ago
- CellWhisperer bridges the gap between transcriptomics data and natural language, enabling intuitive interaction with scRNA-seq datasets☆60Updated 11 months ago
- ☆35Updated 2 years ago
- A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence☆33Updated last year
- Toolkit for single-cell DNA methylation analysis.☆42Updated last week
- code to run EPInformer for gene expression prediction and gene-enhancer links prioritization☆44Updated 10 months ago
- CADD scripts release for offline scoring. For more information about CADD, please visit our website☆85Updated 3 months ago
- deep learning-inspired explainable sequence model for transcription initiation☆97Updated 6 months ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆35Updated 5 months ago