Hi - I would use the -d option to make sure all intermediate stages
are saved - and work down the SIENAX processing chain, to find out at
what stage you are getting a problem. For example, was there any
problem with the standard space registration or the brain extraction?
Cheers.
On 20 May 2009, at 21:51, David Lahna wrote:
> Hi all,
>
> I am trying to do a volumetric analysis using sienax. When I manually
> inspect the segmentation output it appears that grey matter,
> particularly in
> the temporal lobes is left out. I have tried systematically changing
> the
> FAST parameters (--iter –lowpass –fHard –init) but these seem to
> have no
> effect on the output. Any suggestions for improving the accuracy of
> the
> segmentation?
>
> Thanks for the help,
> David Lahna
>
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Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
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