---
license: mit
language:
- en
tags:
- arch3d
- genomics
- Hi-C
- foundation-model
- genome-architecture
- global-genome-architecture
- chromosome-conformation-capture
---

# ARCH3D: A foundation model for global genome architecture

This repository contains the checkpoints
  - `pretrained.ckpt`: Pre-trained ARCHED with the pre-training task head
  - `enhanced.ckpt`: ARCH3D fine-tuned for resolution enhancement
  - `hyperedge.ckpt`: ARCH3D with a task head for predicting hyperedges

If you use this model in your work, please cite:

Galioto, Nicholas, et al. "ARCH3D: A foundation model for global genome architecture." _bioRxiv_ (2026): 2026-02.
```bibtex
@article{galioto2026arch3d,
  title={{ARCH3D}: A foundation model for global genome architecture},
  author={Galioto, Nicholas and Stansbury, Cooper and Gorodetsky, Alex Arkady and Rajapakse, Indika},
  journal={bioRxiv},
  pages={2026--02},
  year={2026},
  publisher={Cold Spring Harbor Laboratory}
}
```