Hi Qi,
you should process both time points together via the freesurfer
longitudinal stream. Independent processing is less sensitive. Selecting
one of the time points as a template is also bad, as it induces
processing bias, see:
https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalProcessing
and the References there.
I cannot answer the other question about FA.
Best, Martin
On 05/05/2016 06:52 PM, Zeng, Qi wrote:
Hi All,
I was running freesurfer for a patient case of two time points. Will
you suggest to run it as a group, such as one time point as a template
and followed by longitudinal study, discussing atrophy or run these
two time points separately as two individual, running everything such
recon-all, dt-recon twice and comparing the result, such as thickness,
volume and FA? BTW, I post a question about FA display before: will
anything lead to a rectangular FA display, with extra diffusion out of
the brain skull (no errors during recon and dt …)?
Best,
Qi
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--
Martin Reuter, PhD
Assistant Professor of Radiology, Harvard Medical School
Assistant Professor of Neurology, Harvard Medical School
A.A.Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Research Affiliate, CSAIL, MIT
Phone: +1-617-724-5652
Web : http://reuter.mit.edu
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