How to crop an MR in Display
Start display with your volume to crop as input:
Display volume_to_crop.mnc
Then press on:
H - Volume cropping
F - Set Crop Source ( Enter file name in terminal window )
S - Pick Crop Box
A green contour will appear around the MR planes. You can move the side of this crop window with your mouse.
Click on S again to move another side of the cropping box.
To save this new cropped volume:
R - Crop to file ( Enter file name in terminal window )