Scripts and pipelines that are specific to the Mouse Imaging Centre lab. These programs are not very likely to be applicable to other centres.
Contains:
- script to crop brains for the large field of view in-vivo scans
- script to convert CT images to MINC (adding scan information to the header)
- MEMRI / saddle coil reconstruction script
- distortion correction script (ex-vivo, saddle coil, Bruker cryo coil)
Python3
The perl code:
./autogen.sh
./configure
make
make install
Python scripts:
python3 setup.py install