BarcodeMamba for Taxonomic Classification
A performant and efficient Mamba-2-based foundation model for DNA barcodes in biodiversity analysis.
Usage
The pretrained models can be used for both taxonomic classification on seen species (fine-tune & linear probe) and making genus-level predictions on unseen species (1-NN probe). The instructions for using our models can be found at our GitHub repository.
Citation
If you find BarcodeMamba useful, please consider citing:
@inproceedings{
gao2024barcodemamba,
title={BarcodeMamba: State Space Models for Biodiversity Analysis},
author={Tiancheng Gao and Graham W.~Taylor},
booktitle={{NeurIPS} 2024 Workshop on Foundation Models for Science: Progress, Opportunities, and Challenges},
year={2024},
url={https://openreview.net/forum?id=6ohFEFTr10}
}
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