Dear FSL experts,
I have to process a set of DTI images of patients. These patients have several implants in the deep brain and I want to know the fibers between these areas (I'm not interested about images of fiber but numbers, density, length ecc), I know everything about these points.
I thought to use PROBTRACKX of FSL: I completed eddy current correction and bedpostx but I have some problems to insert multiple masks. Do I have to create a 3D images for each ROI? (there are about 100 ROI in each patients) or are there any methods to automatically insert the coordinates? Which is the better space (diffusion, structural or standard space) to create seed masks? Which file format do I have to use to write the masks?
Bests
Cinzia
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