Hi, Bruce,
 
Our segmentation protocol is the same one as Freesurfer's auto segmentation, I used recon-all -s subject -all, command. I do not know in this protocol, whether fimbria and alveus are included. We do not have skin fiducial to tell right or left side. The interesting thing the mean volume for auto is less than manual segmentation.
 
Aize
 
 
> Subject: Re: [Freesurfer] (no subject)
> From: nicks@nmr.mgh.harvard.edu
> To: fischl@nmr.mgh.harvard.edu
> CC: caoaize@hotmail.com; freesurfer@nmr.mgh.harvard.edu
> Date: Fri, 14 Aug 2009 18:53:41 -0400
>
> just to add a factoid, from the ADNI data set, 793 subjects processed by
> freesurfer:
> Volume Mean: StdDev:
> ------------------- ----- -------
> Left-Hippocampus 3184.335 604.930
> Right-Hippocampus 3233.753 621.896
>
> seems pretty symmetric, with the right being slightly larger (but within
> std). this subject set is a mix of controls, MCI and AD patients.
>
> n.
>
> On Fri, 2009-08-14 at 17:53 -0400, Bruce Fischl wrote:
> > is your segmentation protocol the same as the one we base our automated
> > segmentation on? For example, are fimbria and alveus considered part of
> > the hippocampus?
> >
> > As far as left/right switches go, do you have any fiducial markers (e.g.
> > vitamin E tablets) in the images?
> >
> > cheers
> > Bruce
> > On Sat, 15 Aug 2009, caoaize wrote:
> >
> > >
> > > Hi, there,
> > >
> > >
> > > I have some problem for the hippocampus segmentation results.
> > >
> > > 1. My structural data are originally in par-rec file. I used r2agui to
> > > convert them into .nii format, then use recon-all -i to convert the .nii
> > > data into freesurfer .mgz format. Based on these operations, I run
> > > recon-all -all on all my data, the statistical report show that the mean
> > > left hippocampus volume is bigger than the right one, while literature
> > > shows that the right one should be bigger. This problem continuously
> > > appeared in our different studies. I am not sure whether it is r2agui's
> > > problem, which changed the oritation of the structural data. Do you have
> > > any idea?
> > >
> > > 2. After autosegmentation, we did a statistical comparison analysis
> > > between automatic segmentation and manual segmentation, and the
> > > correlation is quite low, less than 80%, which is not acceptable for us.
> > >
> > > 3. Can I edit the auto segmentation results in Freesurfer if we think the
> > > auto segmentation is not good enough in some area?
> > >
> > > I will be really appreciated for your help.
> > >
> > > Aize
> > >
> > >
> > > _________________________________________________________________
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