Hello!
I am trying to get a super accurate normalization of the substania nigra using diffusion MRI data; however, there seems to be some variability in the location of the substantia nigra with my current pipeline.
My current pipeline first runs flirt of the FA image in subject space to the FMRIB template. Next, I run fnirt using the affine matrix obtained from the flirt step.
Is there anything I can add to my pipeline to get a more accurate alignment? Are there any different normalization techniques I could use?
Thanks,
Derek Archer
|