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--- |
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license: mit |
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language: |
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- en |
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tags: |
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- biology |
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- single-cell |
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- scFM |
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- Drosophila |
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- foundation-model |
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- cell-type-annotation |
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--- |
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<div align="start"> |
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<img src="lemur-flaticon.png" alt="Lemur Icon" width="250"> |
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<h1>Lemur: A Single-Cell Foundation Model for <em>Drosophila melanogaster</em> 🪰🔬</h1> |
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</div> |
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**Lemur** is a single-cell foundation model developed specifically for *Drosophila melanogaster*. It achieves fine-tuning-free cell-type annotation using two key innovations: |
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- **Comprehensive Pre-training:** Trained on an integrated whole-organism atlas with a unified cell-type annotation schema. |
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- **Hierarchical Decoding:** Employs a transformer-based hierarchical cell-type decoder to generate consistent predictions at multiple levels of granularity. |
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### Highlights ⚡️ |
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- **Fine-Tuning-Free Annotation:** No extra training required on new datasets. |
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- **Robust Across Conditions:** Consistent performance across various tissue types, experimental conditions, and sequencing platforms. |
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- **Zero-Shot Batch-Effect Correction:** Automatically corrects batch effects without further adjustments. |
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- **Broad Applications:** Tailored for the fly research community with potential implications for aging and neurodegenerative disease studies in humans. |
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### Status & Availability 🚀 |
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- **Model Weights:** Available now on the Hugging Face Hub 🏋🏻♂️. |
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- **Code:** Soon to be released. Stay tuned! 🔥👀 |
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### Publication & Citation 📚🔗 |
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We're excited to share our manuscript, *Lemur: A Single-Cell Foundation Model with Fine-Tuning-Free Hierarchical Cell-Type Generation for* *Drosophila melanogaster*, which is now available as a preprint on [bioRxiv: 10.1101/123456](https://www.biorxiv.org/content/10.1101/123456)! 🚀✨ |
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If you find our work helpful, please consider citing our preprint as follows: |
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```bibtex |
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@article{your_citation_key, |
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title={Lemur: A Single-Cell Foundation Model with Fine-Tuning-Free Hierarchical Cell-Type Generation for *Drosophila melanogaster*}, |
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author={Doe, John and Smith, Jane and Collaborators}, |
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journal={bioRxiv}, |
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year={2025}, |
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doi={10.1101/123456} |
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} |
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``` |
