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license: apache-2.0
---
This repository is a fork of the DNABERT-S repository: https://huggingface.co/zhihan1996/DNABERT-S. It is modified to not load FlashAttention, which uses an outdated and no longer available version of Triton. While the standard protocol is to simply uninstall Trition when using DNABERT-S, this is not ideal for integrating DNABERT-S into a package.
This version and the original version provide identical outputs on simple test code.
If you use this model please provide attribution to:
```
@misc{zhou2024dnaberts,
title={DNABERT-S: Learning Species-Aware DNA Embedding with Genome Foundation Models},
author={Zhihan Zhou and Winmin Wu and Harrison Ho and Jiayi Wang and Lizhen Shi and Ramana V Davuluri and Zhong Wang and Han Liu},
year={2024},
eprint={2402.08777},
archivePrefix={arXiv},
primaryClass={q-bio.GN}
}
```
Original Github: https://github.com/MAGICS-LAB/DNABERT_S
Original HF repo: https://huggingface.co/zhihan1996/DNABERT-S
Original paper: https://arxiv.org/abs/2402.08777
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