TranslationalBioinformaticsUnit / TransformersInGenomicsPapers
A curated repository designed to serve as a comprehensive guide for researchers interested in the intersection of Transformer models and genomics. This repository compiles key academic papers that demonstrate the application of transformer-based models in genomics, providing users with a valuable resource to navigate this rapidly evolving field.
☆20Updated 4 months ago
Alternatives and similar repositories for TransformersInGenomicsPapers:
Users that are interested in TransformersInGenomicsPapers are comparing it to the libraries listed below
- Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…☆49Updated this week
- Computational Optimization of DNA Activity (CODA)☆56Updated 3 weeks ago
- C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.☆74Updated 9 months ago
- code to run sei and obtain sei and sequence class predictions☆102Updated 2 years ago
- A modular framework for multimodal cross-cell-type transcriptional regulation models☆68Updated last week
- Integrate Any Omics: Towards genome-wide data integration for patient stratification☆50Updated last month
- A Transformer-based model for read-level DNA methylation pattern identification and tumour deconvolution☆28Updated last month
- Knowledge-primed neural networks☆36Updated 2 years ago
- Code for evaluating single cell foundation models scBERT and scGPT☆43Updated 8 months ago
- ☆36Updated 8 months ago
- Deep Learning the T Cell Receptor Binding Specificity of Neoantigen☆80Updated 2 years ago
- A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner☆53Updated last week
- RNA-seq prediction with deep convolutional neural networks.☆139Updated 3 weeks ago
- ☆60Updated last year
- Tool for Motif Deconvolution in large HLA-II ligand datasets without the need of prior alignment.☆13Updated 2 months ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆63Updated last year
- deep learning-inspired explainable sequence model for transcription initiation☆94Updated last month
- ☆73Updated last year
- A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.☆91Updated 9 months ago
- KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph☆62Updated last month
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆46Updated 2 weeks ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆69Updated 4 months ago
- ☆18Updated 2 months ago
- Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space☆77Updated last month
- What you need to process the Quarterly DepMap-Omics releases from Terra☆115Updated this week
- Codes for paper: Evaluating the Utilities of Large Language Models in Single-cell Data Analysis.☆68Updated 3 months ago
- ☆83Updated 3 weeks ago
- Single-cell ATAC-seq analysis via Latent feature Extraction☆102Updated last year
- Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data☆118Updated 2 years ago
- scPerturb: A resource and a python/R tool for single-cell perturbation data☆120Updated 2 months ago