Dear Anastasia,
As we are analyzing DTI data acquired in patients with epilepsy we are especially interested in the fornix. I've come across the mri_cc -f option for fornix segmentation (native space) but I've also read that manual tracing/labeling of the tracts would be needed in the 33 controls for TRACULA (training set - trctrain). In Wakana et al. 2011 I see that the fornix was not included due to low reproducibility and it further states:
"the reason for the poor reproducibility is most likely due to not enough spatial resolution with respect to the diameter"
I wonder if you could please guide us in how to best add this tract to TRACULA so that it would be consistent in the methods compared with the other tract ROI definitions or perhaps state what were the difficulties in adding this particular tract to TRACULA.
Thank you very much, Best wishes, Barbara