Spinal cord diffusion MRI preprocessing tool
Only tested on 2.7. I recommend pip for the following module installation.
- numpy
- scipy
- nibabel
- matplotlib
- Ubuntu/Debian:
sudo apt-get install python-tk
- Fedora:
yum install tkinter
- for DTI map generation with outlier rejection
We don't have any fancy installation method yet.
- Download to any directory:
git clone git@github.com:junqianxulab/SC_dMRI.git
- Give executable permission to the main file:
chmod +x {download_directory}/SC_dMRI/csp_preprocessing/spine_reg_gui.py
- Make a symbolic link in a user directory (e.g.
ln -s {download_directory}/SC_dMRI/csp_preprocessing/spine_reg_gui.py ${HOME}/bin
) or a system directory (e.g.ln -s {download_directory}/SC_dMRI/csp_preprocessing/spine_reg_gui.py /local/bin
).
- Note that the directory containing the symbolic link should be in a PATH environment.
- Try
spine_reg_gui.py