Foundation Models for Genomics & Transcriptomics
☆923Feb 24, 2026Updated 7 months ago
Alternatives and similar repositories for nucleotide-transformer
Users that are interested in nucleotide-transformer are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena☆810Apr 22, 2025Updated last year
- [ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome☆517Jan 1, 2026Updated 9 months ago
- RNA-seq prediction with deep convolutional neural networks.☆267Sep 30, 2026Updated 2 weeks ago
- Biological foundation modeling from molecular to genome scale☆1,578Mar 20, 2026Updated 6 months ago
- Genomic Pretrained Network - GPN, GPN-MSA, PhyloGPN, GPN-Star☆383Oct 7, 2026Updated last week
- 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.
- Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch☆575Jun 26, 2026Updated 3 months ago
- DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome☆780Jan 22, 2026Updated 8 months ago
- Benchmarks for classification of genomic sequences☆184Aug 14, 2025Updated last year
- Genome modeling and design across all domains of life☆4,260Jun 19, 2026Updated 3 months ago
- Benchmarking DNA Language Models on Biologically Meaningful Tasks☆134Oct 31, 2024Updated last year
- ☆52Mar 22, 2026Updated 6 months ago
- 🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨☆490Updated this week
- Bi-Directional Equivariant Long-Range DNA Sequence Modeling☆252Mar 18, 2026Updated 6 months ago
- Biological sequence analysis for the modern age.☆323Updated this week
- 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.
- [ISMB 2025] DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models☆136Jan 1, 2026Updated 9 months ago
- gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.☆364Oct 7, 2026Updated last week
- This API provides programmatic access to the AlphaGenome model developed by Google DeepMind.☆2,193Updated this week
- code to run sei and obtain sei and sequence class predictions☆118Dec 20, 2022Updated 3 years ago
- Computational Optimization of DNA Activity (CODA)☆69Apr 3, 2025Updated last year
- Evolutionary Scale Modeling (esm): Pretrained language models for proteins☆4,170Feb 7, 2024Updated 2 years ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆52Oct 4, 2024Updated 2 years ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆99Jun 10, 2026Updated 4 months ago
- Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…☆157Oct 2, 2026Updated last week
- 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.
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆41Mar 27, 2025Updated last year
- [NPJ AI] A foundation model for individual genome modelling☆29May 9, 2026Updated 5 months ago
- GENA-LM is a transformer masked language model trained on human DNA sequence.☆232Oct 5, 2026Updated last week
- 🧬 ManyFold: An efficient and flexible library for training and validating protein folding models☆80Dec 14, 2022Updated 3 years ago
- ☆2,991Sep 16, 2026Updated 3 weeks ago
- EPInformer workflows for gene-expression prediction from DNA sequence, epigenomic signals, and chromatin contacts.☆64Jul 17, 2026Updated 2 months ago
- BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model | NeurIPS '25☆405May 28, 2026Updated 4 months ago
- Machine learning methods for DNA sequence analysis.☆66Sep 30, 2026Updated 2 weeks ago
- Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…☆131Dec 10, 2025Updated 10 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ☆105Apr 3, 2026Updated 6 months ago
- Sequential regulatory activity predictions with deep convolutional neural networks.☆475Jan 15, 2026Updated 9 months ago
- ☆30Dec 15, 2025Updated 10 months ago
- Toolset for training quantitative sequence to function models.☆23Mar 15, 2024Updated 2 years ago
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆257Jun 9, 2026Updated 4 months ago
- A Large-Scale Dataset and Framework for Genomic Foundation Model Benchmarking☆33Sep 1, 2026Updated last month
- deep learning-inspired explainable sequence model for transcription initiation☆109Mar 3, 2025Updated last year