we do have a procedure but it involved a fair amount of manual intervention and isn't terribly well documented (and it's evolving). It depends on Andre van der Kouwe's multi-echo flash sequence, which you would need to get as well
cheers Bruce
On Tue, 15 Mar 2011, Auer, Tibor MD. Ph.D. wrote:
Dear Users,
Is there a way to process fixated brain (after autopsy) with Freesurfer?
I have read somewhere that I should just "invert" the image, but what does it mean? And would it not increase the noise and the signal from the CSF?
Of course, the brain is without any skull, pia and dura mater. Does it cause no problem for Freesurfer?
Thanks,
Auer, Tibor M.D. Ph.D.
Biomedizinische NMR Forschungs GmbH
am Max-Planck Institut für Biophysikalische Chemie
Am Fassberg 11
37077 Göttingen
Germany
Phone/Work: +49-(0)551-201-1725
Mobile: +49-(0)176-8012-7921
E-Mail: tauer@gwdg.de mailto:tibor.auer@gmail.com