Hallo,
I'm rather new to FSL and try to segment T1-weighted rat brains using FAST.
(3D FISP TE/TR 4/8 ms 0.15*0.12*0.23 mm^3)
After brain extraction (BET), some polishing and bias correction (SPM)
I used
fast -t 1 -n 3 -g --nopve ....
since the contrast is not really good I also tried "-t 3" (PD-weighted).
The results are pretty good considering the low contrast, but in some
parts of
the images - quite often in the hippocampus (dentate gyrus) - where the
image intensity is actually highest, areas of
pixels are strangely misclassified as CSF (lowest intensity).
Can anybody give me a clue about what is going wrong?
Thanks,
Wolfgang
--
----------------------------------------------------------
Wolfgang Weber-Fahr, Dr.rer.nat.
Central Institute of Mental Health
Neuroimaging Department
J5
68072 Mannheim
Germany
email: [log in to unmask]
phone: ++49 621 1703 2961
|