Hello FSL Experts,
I am currently attempting to pull out hippocampal volumes using FIRST and would like to correct for field inhomogeneities in my MPRAGE files prior to running FIRST. That said, I was wondering what tool would be best to use for this type of correction (FAST?, SUSAN?, or BET?). After sifting through the forum I have been able to find several replies stating that applying SUSAN is not necessary, while other replies state that FAST or BET (-B) might be the best tools to use. Given this information I was wondering if someone could answer the following questions
1. What is the best tool to use to correct for field inhomogeneities in my MPRAGE?
2. Should I apply this tool before or after I bet my MPRAGE?
3. Would this order of operation be correct?
a. Correct for field inhomogeneity
b. Bet
c. first_flirt
d. run_first
e. first_boundary_correct
f. pull out volumes using fslstats
g. Apply Sienax to calculate ICV (using VSCALING factor)
Cheers!
|