For segmenting the MRI scan I can use FSL FAST. But, as it takes a lot of time to segment, I have thought of another way. So I need your suggestions on this.
I have the structural scan in subject space. I transformed it to standard MNI space using FSL FLIRT and got the transformation matrix (T). I can then take the standard CSF, WM or GM tissue prior and then transform it to subject space using T inverse. This will result in the tissue priors transformed to subject space which I can use to segment the structural brain scan. Will this work?
Thanks in advance!