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Notebooks

Version 2.2 by manuelmenendez on 2025/02/02 00:46

== Neurodiagnoses: Jupyter Notebooks ==
Welcome to the Jupyter Notebooks Hub for the Neurodiagnoses project.  
Here, you will find a collection of AI-powered notebooks used for processing biomarkers, training AI models, and performing neuroimaging analysis.

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=== Available Notebooks ===
Below is a list of Jupyter Notebooks available in EBRAINS. Click on any notebook to open it.

1. **Biomarker Classifier**  
   Link: [Open Notebook](https://lab.jsc.ebrains.eu/hub/user-redirect/lab/tree/shared/Neurodiagnoses/biomarker_classifier.ipynb)  
   Description: Trains a machine learning model to classify patients based on biomarkers (Amyloid-beta, Tau, NFL).  
   Usage: Run all cells to train the model and generate predictions.

2. **MRI Feature Extraction** (Coming Soon)  
   Link: Notebook Link TBD  
   Description: Uses AI to extract neuroanatomical features from MRI scans.  
   Usage: Upload MRI data and run the script to generate reports.

3. **EEG Analysis with Deep Learning** (Coming Soon)  
   Link: Notebook Link TBD  
   Description: Uses deep learning models to analyze EEG patterns and detect abnormalities.  
   Usage: Load EEG recordings and apply pre-trained AI models.

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=== How to Run Notebooks ===
To use the notebooks, follow these steps:

1. Click on a notebook link above to open it inside EBRAINS Jupyter Lab.
2. If prompted, select the Python 3 (ipykernel) kernel.
3. Run each cell sequentially (Shift + Enter).
4. Check outputs and modify parameters as needed.
5. Download results if necessary.

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=== Contribute a New Notebook ===
Do you have a notebook to contribute? Follow these steps:

1. Create a new Jupyter Notebook in EBRAINS.
2. Save it inside `/shared/Neurodiagnoses/`.
3. Add the notebook link to this page.
4. Ensure documentation is included in the first cell.

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=== Additional Resources ===
- EBRAINS Jupyter Lab: [Visit Here](https://lab.jsc.ebrains.eu/)  
- GitHub Repository: [Neurodiagnoses GitHub](https://github.com/manuelmenendezgonzalez/neurodiagnoses)  
- Project Wiki: [Neurodiagnoses Wiki](https://wiki.ebrains.eu/bin/view/Collabs/neurodiagnoses/)  
 

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