Question

So, I use SPM to register fMRI brain images between the same patient; however, I am having trouble registering images between patients.

Essentially, I want to register a brain atlas to a patient-specific scan, so that I can do some image patching. So register, then apply that warping and transformation to any number of images.

SPM was unsuccessful in such a registration. It cannot warp the atlas to be in the same brain shape as the patient brain.

Would software such as freesurfer be good for this?? Or is there something better out there in either matlab or python (but preferably python)??

Thanks!

tylerthemiler

Answer 1

Freesurfer segments and annotates the brain in the patient’s native space, resulting in patient-specific regions, like so.

I’m not sure what you mean by patching, or to what other images you’d like to apply this transformation, but it seems like the software most compatible for working with individual patient data, rather than normalized data across patients.