Hi Folks, We have subjects with high lesion load which changes significantly over time. I want to use FS functions to build a pipeline for comparing lesion changes in two time-points of the same-subject. I am thinking of using the following steps;
1) Use mri_normalize to normalize the two time-points. 2) Use mri_robust_register to register two time-points of the same subject to half-way space. 3) Use mri_skull_strip 4) Use subtraction imaging or some other techniques to look for lesion changes.
My questions are: 1) I think I need mri_normalize since the output from mri_robust_register is not intensity normalized ? 2) Instead of the first three steps, I could also do the following: Run autorecon1 for both timepoints and then run mri_robust_register on the skull stripped images Does it matter if we run mri_robust_register before or after skull stripping ?
Thanks Mehul