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Add CIMA Lab organization card

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  2. README.md +77 -5
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README.md CHANGED
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  ---
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- title: README
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- emoji: 馃悹
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  pinned: false
 
 
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  ---
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- Check out the configuration reference at https://huggingface.co/docs/hub/spaces-config-reference
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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+ title: CIMA Lab
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+ emoji: 馃敩
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+ colorFrom: indigo
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+ colorTo: blue
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  sdk: static
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+ license: mit
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+ short_description: Computational Imaging and Medical AI Lab at CUD, Dubai
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  ---
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+ <p align="center">
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+ <img src="https://raw.githubusercontent.com/cima-lab/.github/main/profile/banner.png" alt="CIMA Lab" width="100%">
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+ </p>
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+
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+ <h1 align="center">CIMA Lab</h1>
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+ <p align="center"><b>Computational Imaging and Medical AI</b></p>
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+ <p align="center">Canadian University Dubai 路 School of Engineering, Applied Science and Technology</p>
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+
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+ <p align="center">
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+ <a href="https://github.com/cima-lab"><img src="https://img.shields.io/badge/GitHub-cima--lab-181717?logo=github&logoColor=white" alt="GitHub"></a>
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+ <a href="https://www.cud.ac.ae"><img src="https://img.shields.io/badge/Web-cud.ac.ae-0b5fff" alt="Website"></a>
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+ <a href="mailto:cimalab@gmail.com"><img src="https://img.shields.io/badge/Contact-cimalab%40gmail.com-6f42c1" alt="Email"></a>
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+ <img src="https://img.shields.io/badge/License-MIT%20by%20default-green" alt="License">
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+ </p>
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+
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+ ---
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+
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+ CIMA Lab brings medical imaging, computational biology, clinical AI, and trustworthy AI
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+ together under one lab at CUD. We host research projects from faculty across schools and
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+ act as the university's front door for external research collaboration and industry
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+ engagement.
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+
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+ This Hugging Face organization is where the lab's **artifacts** live: model checkpoints,
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+ curated datasets, evaluation reports, and demos. The **code** lives on
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+ [GitHub](https://github.com/cima-lab). Every model here traces back to a public
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+ repository and a reproducible environment file.
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+
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+ ## Mission
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+
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+ Develop, validate, and openly release AI methods for imaging, biology, and health systems.
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+ Host and connect faculty-led projects. Train researchers at every level. Translate results
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+ with clinical and industry partners.
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+
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+ ## Research areas
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+
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+ | # | Area | Focus | Status |
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+ |---|------|-------|--------|
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+ | 1 | **Medical and Biological Imaging AI** | Reconstruction, restoration, segmentation, and foundation-model adaptation for radiology, pathology, and microscopy | Founding area |
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+ | 2 | **Clinical and Health-Systems AI** | Explainable diagnostics, disease progression, health-technology assessment, decision support | Seed projects pending faculty affiliation |
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+ | 3 | **Computational Biology and Biotech** | Machine learning on omics, protein and molecular data, bio-signal analysis, lab automation | Open call for an area lead |
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+ | 4 | **Trustworthy and Deployable Health AI** | Explainability, robustness, privacy-preserving and federated learning, regulatory readiness | Cross-cutting, open call for an area lead |
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+
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+ ## Projects
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+
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+ Volume electron microscopy is our first deep vertical. The four projects below cover the
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+ full pipeline from raw serial sections to quantified organelles.
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+
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+ | Project | What it does | Stage | Code | Artifacts |
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+ |---------|--------------|-------|------|-----------|
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+ | **MicroSAM LoRA + LLRD** | Parameter-efficient adaptation of the MicroSAM foundation model for mitochondria instance segmentation in EM volumes | Active, checkpoints released | [GitHub](https://github.com/cima-lab/Microsam_llrd) | [microsam-llrd](https://huggingface.co/cimalab-cud/microsam-llrd) |
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+ | **vEMINR** | Faster isotropic reconstruction for volume EM with implicit neural representations. Published in *Advanced Science* (2026) | Published | [GitHub](https://github.com/cima-lab/vEMINR) | Planned |
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+ | **vEMstitch** | Fully automatic image stitching for volume EM, in Python and C++ | Maintained | [GitHub](https://github.com/cima-lab/vEMstitch) | Planned |
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+ | **FlowInpaint** | Inpainting for serial-section images, guided by optical flow from neighbouring sections | Active | [GitHub](https://github.com/cima-lab/FlowInpaint) | Planned |
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+
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+ ## Standards every hosted artifact follows
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+
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+ - **Permissive license by default.** MIT unless a project needs otherwise.
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+ - **Traceable.** Every model card names its source commit, training data, and environment lock file.
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+ - **Reproducible.** Pinned environment and dependency files ship with the code.
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+ - **Evaluated in the open.** Metrics, the exact split that produced them, and the tuned inference parameters are published together.
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+ - **No clinical or human-subject data** without ethics approval and a data-use agreement. See [SECURITY.md](https://github.com/cima-lab/.github/blob/main/SECURITY.md).
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+
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+ ## Get involved
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+
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+ - **Faculty** wanting to affiliate a project: read [GOVERNANCE.md](https://github.com/cima-lab/.github/blob/main/GOVERNANCE.md).
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+ - **Students:** undergraduate, MSc, and PhD positions are open across all four research areas. Email us.
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+ - **Partners:** academic, clinical, and industry collaboration is welcome. Read [CONTRIBUTING.md](https://github.com/cima-lab/.github/blob/main/CONTRIBUTING.md).
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+
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+ ## Contact
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+
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+ [cimalab@gmail.com](mailto:cimalab@gmail.com) 路 [cud.ac.ae](https://www.cud.ac.ae) 路 [github.com/cima-lab](https://github.com/cima-lab)