code to run EPInformer for gene expression prediction and gene-enhancer link prediction
☆55Jan 19, 2026Updated 5 months ago
Alternatives and similar repositories for EPInformer
Users that are interested in EPInformer are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆28Nov 7, 2023Updated 2 years ago
- Enformer Celltyping is a tensorflow, multi-headed attention based model that incorporates distal effects of Deoxyribonucleic Acid (DNA) i…☆16Jun 25, 2025Updated last year
- ☆25Aug 20, 2024Updated last year
- ☆13Jan 23, 2025Updated last year
- gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.☆330Jun 12, 2026Updated 2 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- For fine-tuning Enformer using paired WGS & gene expression data☆32Aug 27, 2025Updated 10 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆92Sep 24, 2025Updated 9 months ago
- Evaluating genomic sequence models for explaining personalized expression variation☆20Dec 6, 2023Updated 2 years ago
- Machine learning methods for DNA sequence analysis.☆63Jun 10, 2026Updated 2 weeks ago
- A Large-Scale Dataset and Framework for Genomic Foundation Model Benchmarking☆32Jun 17, 2026Updated last week
- ☆51Mar 22, 2026Updated 3 months ago
- ☆34Jan 27, 2025Updated last year
- Snakemake workflow for comparing E-G links to experimental data☆24May 27, 2026Updated last month
- Toolset for training quantitative sequence to function models.☆23Mar 15, 2024Updated 2 years 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.
- ☆27Dec 10, 2025Updated 6 months ago
- RNA-seq prediction with deep convolutional neural networks.☆246Aug 28, 2025Updated 10 months ago
- Computational Optimization of DNA Activity (CODA)☆68Apr 3, 2025Updated last year
- Chromatin interaction aware gene regulatory modeling with graph attention networks☆29Feb 21, 2023Updated 3 years ago
- Downloader for ENCODE☆32Oct 5, 2020Updated 5 years ago
- Biological sequence analysis for the modern age.☆299Updated this week
- A framework to score and analyze variant effects genome-wide using ChromBPNet models☆19Mar 2, 2026Updated 3 months ago
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆260Mar 24, 2026Updated 3 months ago
- Foundation Models for Genomics & Transcriptomics☆887Feb 24, 2026Updated 4 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.
- ☆12Sep 7, 2023Updated 2 years ago
- ☆10Dec 11, 2024Updated last year
- ☆12Oct 10, 2024Updated last year
- Evolution-inspired data augmentations for PyTorch-based models for regulatory genomics☆25Jun 3, 2025Updated last year
- A command-line tool for reading SAM/BAM files and converted them directly to bigwig files.☆21Apr 15, 2026Updated 2 months ago
- Dirichlet Diffusion Score Model for Biological Sequence Generation.☆65Feb 12, 2025Updated last year
- Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch☆567Updated this week
- Plasmid.ai is the largest open-source toolkit for developing plasmid foundation models.☆14Jan 22, 2025Updated last year
- ChIA-PIPE: A fully automated pipeline for comprehensive ChIA-PET data analysis and visualization☆29Aug 13, 2021Updated 4 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Equivariant layers for RC-complement symmetry in DNA sequence data☆13Feb 24, 2022Updated 4 years ago
- A python extension for quick access to bigWig and bigBed files☆245Jan 14, 2026Updated 5 months ago
- Signed LD profile regression code☆19Aug 1, 2025Updated 10 months ago
- ☆21Feb 15, 2025Updated last year
- TACO: TFBS-Aware Cis-Regulatory Element Optimization☆23Aug 1, 2025Updated 10 months ago
- Standard set of data-loaders for training and making predictions for DNA sequence-based models.☆84Sep 3, 2024Updated last year
- ☆13Nov 19, 2021Updated 4 years ago