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