An open source application that aims to automatize treatments to create a brain function atlas - Industrial Project
This is an Industrial Project in collaboration with the Central Hospital of Nancy (France). Its aim was to create a tool to automatize the image treatment and clustering application on patients' medical data (NIfTI images, brain region-function associations, etc). This would then allow to create a brain function atlas that can be exported and shared in the neurosciences community.
This tool has thus two components :
- A Python library that ensures all treatments of NIfTI Images and that is the core of this software. It can be used and incorporated into other applications of your making
- A PyQt interface according to the needs of CHRU neurosurgeons
This project was designed and developped by : Version 1 :
Raphael Agathon
Maxime Cluchague
Graziella Husson (@Graziella-Husson)
Valentina Zelaya (@vz-chameleon)
Version 2 :
Marie Adler
Aurélien Benoît
Thomas Grassellini
Lucie Martin
- Install anaconda for windows: https://www.anaconda.com/download/. Tick the option "Add Anaconda to my PATH variable".
- In a terminal :
conda install python=2.7
activate root
conda install -c anaconda pyqt=4.11.4
conda install numpy
conda install scikit-learn
conda install pyqtgraph
conda install pyopengl
conda install -c conda-forge nibabel
- Download the .zip project on the GitHub repository. Decompress it, and create a .bat file (carefull with the extensions in windows, sometime a .txt will be added and you cannot see it.).
- In the .bat file (This file has to be in the same folder than the decompressed .zip.):
cd brainMapper-master/UI
python UI.py
- Create a .bat shortcut on your Desktop.
This project is licensed under the GPL-3 License. All other versions of this software should be released under the same license
- Hat tip to Dr Fabien Rech