Repository for "NucleoBench: A Large-Scale Benchmark of Neural Nucleic Acid Design Algorithms"
☆27Apr 12, 2026Updated last month
Alternatives and similar repositories for nucleobench
Users that are interested in nucleobench are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- The full training script for Enformer - Tensorflow Sonnet☆18Apr 18, 2022Updated 4 years ago
- A short tutorial to using DL and keras for genomics with sequence data.☆15Dec 3, 2020Updated 5 years ago
- Computational Optimization of DNA Activity (CODA)☆68Apr 3, 2025Updated last year
- Code for the Framepool model☆15Feb 1, 2025Updated last year
- Evaluating genomic sequence models for explaining personalized expression variation☆20Dec 6, 2023Updated 2 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- An R package for the spatial analysis of population genetic data.☆20May 15, 2026Updated last week
- ☆13Nov 19, 2021Updated 4 years ago
- Re-implementation of GP-GOMEA that attempts to be simpler to understand and use than the original.☆15Mar 31, 2026Updated last month
- A family of codon-resolution language models trained on 130 million protein-coding sequences from over 20,000 species.☆77Nov 1, 2025Updated 6 months ago
- Collection of tutorials to build RNA-KG v2.0 from scratch and for reproducing experiments such as "context-aware" KG pruning, clustering,…☆29Mar 16, 2026Updated 2 months ago
- Code for "Optimizing 5’UTRs for mRNA-delivered gene editing using deep learning"☆24Jul 2, 2024Updated last year
- An end-to-end linear-time algorithm for structural alignment and conserved structure prediction of RNA homologs☆13Jun 28, 2024Updated last year
- A software suite for accurate identification, annotation, translation, and feature characterization of annotate transcripts.☆23Sep 1, 2021Updated 4 years ago
- Deep learning models to predict enhancers in different Drosophila embryo tissues☆20Dec 10, 2023Updated 2 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Codon Usage Analysis and Prediction of Gene Expressivity☆23Jan 2, 2019Updated 7 years ago
- ☆12Mar 17, 2023Updated 3 years ago
- CREsted is a Python package for training sequence-based deep learning models on scATAC-seq data, for capturing enhancer code and for desi…☆73May 8, 2026Updated 2 weeks ago
- ☆21Jul 23, 2025Updated 10 months ago
- "DeepResearch-Eval: An End-to-End Evaluation Framework for DeepResearch Systems"☆45Oct 16, 2025Updated 7 months ago
- Deep Exploration Networks - Diverse Deep Generative Models for DNA, RNA and Protein Sequences☆31Oct 1, 2021Updated 4 years ago
- ☆12Aug 11, 2025Updated 9 months ago
- ☆10Oct 30, 2018Updated 7 years ago
- ☆13Apr 23, 2025Updated last year
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- [NeurIPS 2025] Beyond Masked and Unmasked: Discrete Diffusion Models via Partial Masking☆30May 7, 2026Updated 2 weeks ago
- ☆26Dec 19, 2025Updated 5 months ago
- Genomic sequence preprocessing toolkit☆13Updated this week
- GIANT (Gene-based data Integration and ANalysis Technique) is a method for large-scale joint analyses of atlas-level single cell data.☆14Jun 13, 2023Updated 2 years ago
- Autonomous ML research infrastructure for autoresearch by Karpathy. Multi-GPU parallelism, structured experiment tracking, adaptive searc…☆94Apr 18, 2026Updated last month
- ☆52Mar 3, 2026Updated 2 months ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Nov 15, 2024Updated last year
- Library to extract embeddings for DNA sequences using BioFM genomics foundation model☆20Aug 13, 2025Updated 9 months ago
- ☆27Feb 23, 2026Updated 3 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- A python framework for inferring demography from tracts of identity by state as reported in PLoS Genetics by Harris and Nielsen (2013)☆15Aug 1, 2013Updated 12 years ago
- ☆21Feb 15, 2025Updated last year
- Visualize global properties of large RNAs using GraphViz force-directed layout.☆24Sep 7, 2023Updated 2 years ago
- Structural Variants ANnotator (SVAN)☆16Mar 17, 2026Updated 2 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆55Jan 19, 2026Updated 4 months ago
- ViennaRNA Package consists of a C code library for the prediction and comparison of RNA secondary structures☆15May 20, 2022Updated 4 years ago
- Genealogical Estimation of Variant Age (GEVA)☆33Sep 30, 2021Updated 4 years ago