Hi, FreeSurfer experts
I have a question regarding visualizing the cortical projections of a fiber bundle using FreeSurfer based on the data from a group of subjects. Since I am interested in seeing both the cortical projections on the surface and the trajectory of the fiber bundle derived from the group, I would like to have them in the same space. I wonder wether fsaverage surface template and mni305.cor.mgz have such a spatial correspondence.
What I am planning to do: To show the cortical projections of the fiber pathways: (1) derive the fiber pathways using FSL (2) map the transformations between each subject's T1w image to mni305 (or any templates in FS that have spatial correspondence with fsaverage surface template) using non-linear methods, such as fnirt. (3) transform the fiber pathway from each subject's space to the mni305 space using the transformations derived earlier. (4) sample the projections to the surface using "mri_vol2surf"
In this way, I will also have the volume average of the fiber pathways to show the trajectories of the fiber pathway.
Do these steps sound ok? Is there any better way to do what I want to achieve here?
Many thanks in advance!
Longchuan