Attention: The EBRAINS drive will be unavailable for most of the weekend starting the 25th October. Although the Lab is availble while the Drive is down, files that are stored in the Drive will not be loaded and you will be unable to save documents directly on the Lab.


Notebooks

Version 1.1 by manuelmenendez on 2025/02/02 00:43

== 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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