instadeepai / nucleotide-transformerView external linksLinks
Foundation Models for Genomics & Transcriptomics
☆817Jan 15, 2026Updated 3 weeks ago
Alternatives and similar repositories for nucleotide-transformer
Users that are interested in nucleotide-transformer are comparing it to the libraries listed below
Sorting:
- [ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome☆459Jan 1, 2026Updated last month
- Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena☆758Apr 22, 2025Updated 9 months ago
- Genomic Pre-trained Network☆321Feb 6, 2026Updated last week
- Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch☆557Jul 7, 2025Updated 7 months ago
- Biological foundation modeling from molecular to genome scale☆1,477Nov 19, 2025Updated 2 months ago
- DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome☆738Jan 22, 2026Updated 3 weeks ago
- Benchmarks for classification of genomic sequences☆172Aug 14, 2025Updated 5 months ago
- gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.☆314Jan 29, 2026Updated 2 weeks ago
- RNA-seq prediction with deep convolutional neural networks.☆225Aug 28, 2025Updated 5 months ago
- ☆42Updated this week
- 🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨☆462Dec 22, 2025Updated last month
- [ISMB 2025] DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models☆123Jan 1, 2026Updated last month
- Biological sequence analysis for the modern age.☆261Jan 19, 2026Updated 3 weeks ago
- Bi-Directional Equivariant Long-Range DNA Sequence Modeling☆225Jun 17, 2025Updated 7 months ago
- Computational Optimization of DNA Activity (CODA)☆67Apr 3, 2025Updated 10 months ago
- Evolutionary Scale Modeling (esm): Pretrained language models for proteins☆3,972Feb 7, 2024Updated 2 years ago
- Benchmarking DNA Language Models on Biologically Meaningful Tasks☆129Oct 31, 2024Updated last year
- code to run sei and obtain sei and sequence class predictions☆111Dec 20, 2022Updated 3 years ago
- GENA-LM is a transformer masked language model trained on human DNA sequence.☆222Updated this week
- Genome modeling and design across all domains of life☆3,316Sep 17, 2025Updated 4 months ago
- Orthrus is a mature RNA model for RNA property prediction. It uses a mamba encoder backbone, a variant of state-space models specifical…☆87Dec 10, 2025Updated 2 months ago
- 🧬 ManyFold: An efficient and flexible library for training and validating protein folding models☆81Dec 14, 2022Updated 3 years ago
- Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them☆174Oct 10, 2025Updated 4 months ago
- This repository hosts a minimal version of a Python API for BPNet.☆55Jan 24, 2026Updated 3 weeks ago
- ☆2,235Jan 26, 2026Updated 2 weeks ago
- Sequential regulatory activity predictions with deep convolutional neural networks.☆462Jan 15, 2026Updated 3 weeks ago
- ☆33Updated this week
- Nature Methods: RNA foundation model (together with RhoFold)☆349May 27, 2025Updated 8 months ago
- Evaluating genomic sequence models for explaining personalized expression variation☆19Dec 6, 2023Updated 2 years ago
- Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…☆72Apr 28, 2023Updated 2 years ago
- ☆1,473Nov 12, 2025Updated 3 months ago
- GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics☆140Nov 3, 2025Updated 3 months ago
- deep learning-inspired explainable sequence model for transcription initiation☆100Mar 3, 2025Updated 11 months ago
- ☆23Jan 9, 2026Updated last month
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆44Jan 19, 2026Updated 3 weeks ago
- Align proteins to genomes with splicing and frameshift☆395Jan 5, 2026Updated last month
- Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)☆208Feb 2, 2026Updated last week
- ☆26Nov 7, 2023Updated 2 years ago
- MMseqs2: ultra fast and sensitive search and clustering suite☆1,974Updated this week