Dear Freesurfer Developers,
I have some questions regarding hippocampal and amygdalar subregional segmentation in the latest Freesurfer version:
1) Can one use the segmentation outputs as ROI masks, register those to native space functional image, and extract functional time courses in order to perform seed-based subregional functional connectivity analyses?
2) How sensible do you deem it to assess the functional connectivity profiles of all the subregions? Would you argue against grouping some of the subregions into a larger subregion and assess connectional profiles. For instance combining CA 1 to 4 into a CA subgroup? Or the Subiculum and Pre- Parasubiculum into one subgroup? I am asking this because most literature on hippocampal subregional connections focuses on the major subregions (CA, Dentate Gyrus, Subiculum), with very limited knowledge on connectivity profiles of smaller individual subregions.
3) Is it already possible to segment the amygdala subregions as well with this new pipeline? On the Freesurfer website the following is stated: “In addition to the hippocampal subregions, it also simultaneously segments the nuclei of the amygdala”. However, the page also states that this functionality will soon be available in the dev version, so I am not sure whether the amygdala subregional segmentation pipeline is already in place? If not, is there a preliminary release date known already?
Thanks for your time and effort!