Chromatin interaction aware gene regulatory modeling with graph attention networks
☆29Feb 21, 2023Updated 3 years ago
Alternatives and similar repositories for GraphReg
Users that are interested in GraphReg are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ENNGene: an Easy Neural Network model building tool for Genomics☆11Mar 31, 2022Updated 4 years ago
- Toolset for training quantitative sequence to function models.☆23Mar 15, 2024Updated 2 years ago
- A method for analyzing scATAC-seq experiments.☆33Jun 20, 2025Updated last year
- ☆21Jan 1, 2022Updated 4 years ago
- scover☆23Nov 3, 2023Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Machine learning methods for DNA sequence analysis.☆66Updated this week
- Variational Auto Encoders for learning binding signatures of transcription factors☆15Mar 14, 2024Updated 2 years ago
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆45Jul 3, 2025Updated last year
- Statistically Significant loops from HiChIP data☆49Apr 17, 2024Updated 2 years ago
- TF MOtif Discovery from Importance SCOres☆190Sep 4, 2026Updated 2 weeks ago
- Importing and manipulating Hi-C data in R☆12Apr 29, 2026Updated 4 months ago
- Blazing fast toolkit to work with .hic and .cool files☆48Updated this week
- ☆10Dec 11, 2024Updated last year
- Evaluation framework for computationally inferred gene networks from single-cell data.☆20Oct 23, 2025Updated 10 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ExplaiNN: interpretable and transparent neural networks for genomics☆48Apr 1, 2025Updated last year
- Enformer Celltyping is a tensorflow, multi-headed attention based model that incorporates distal effects of Deoxyribonucleic Acid (DNA) i…☆17Jun 25, 2025Updated last year
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆41Jan 11, 2025Updated last year
- EPInformer workflows for gene-expression prediction from DNA sequence, epigenomic signals, and chromatin contacts.☆61Jul 17, 2026Updated 2 months ago
- Analyzing Hi-C data in R with HiCExperiment objects☆16Apr 29, 2026Updated 4 months ago
- Sequence-based Modeling of single-cell ATAC-seq using Convolutional Neural Networks.☆102Sep 9, 2025Updated last year
- Tutorial for AMSI BioInfoSummer 2018☆30Dec 3, 2018Updated 7 years ago
- A useful tool for shuffling biological sequences while preserving the k-let counts☆14Apr 23, 2024Updated 2 years ago
- RNA-seq prediction with deep convolutional neural networks.☆264Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Workshop on measuring, analyzing, and visualizing the 3D genome with Hi-C data.☆214May 19, 2018Updated 8 years ago
- ☆36Jan 27, 2025Updated last year
- Detecting Sequence Signals in Targeting Peptides Using Deep Learning☆14Sep 5, 2019Updated 7 years ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated 2 years ago
- ☆79May 27, 2026Updated 3 months ago
- Code from "Deep Learning Of The Regulatory Grammar Of Yeast 5′ Untranslated Regions From 500,000 Random Sequences"☆15Sep 26, 2017Updated 8 years ago
- Script to help assessing the evolutionary history of a TE family☆16Sep 5, 2019Updated 7 years ago
- Fully convolutional deep learning variant effect predictor architecture☆23Jan 3, 2024Updated 2 years ago
- Sequential regulatory activity predictions with deep convolutional neural networks.☆475Jan 15, 2026Updated 8 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- R functions for very fast eigenvector calculation☆11Jan 18, 2023Updated 3 years ago
- HiCFoundation is a generalizable Hi-C foundation model for chromatin architecture, single-cell and multi-omics analysis across species.☆51Aug 23, 2025Updated last year
- Python bindings for hictk: read and write .cool and .hic files directly from Python☆16Sep 14, 2026Updated last week
- Species-aware DNA language models capture regulatory elements and their evolution☆28Aug 21, 2023Updated 3 years ago
- Deep convolutional neural networks for biological motion analysis☆14Jan 26, 2019Updated 7 years ago
- This repository contains codes used for the human fetal limb cell atlas.☆17Jan 28, 2025Updated last year
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆32Jan 22, 2025Updated last year