sure, you're welcome to a beta of the source distribution.
cheers, Bruce On Wed, 4 Mar 2009, Anthony wrote:
Hi Bruce,
That would be great. I'm aware of the difficulty in putting partial volume information into segmentation, but maybe it could help to achieve other useful information as aseg.stats only provides the total volume for each label.
Thanks,
Anthony
--- On Thu, 5/3/09, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: From: Bruce Fischl fischl@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] partial volume correction in mri_segstats To: "Anthony" slam_ono@yahoo.com Cc: freesurfer@nmr.mgh.harvard.edu Date: Thursday, 5 March, 2009, 11:04 AM
Hi Anthony,
we're happy to provide the code, but there's no easy way to get a mask,
since each border voxel has more than 1 label in it.
cheers, Bruce
On Wed, 4 Mar 2009, Anthony wrote:
Hi Bruce,
Thanks a lot for your reply . Is there anyway that I can get a mask for a
certain class (e.g WM) after partial volume correction using FS ? Or is it possible for you to provide more details of it so I can reproduce the calculation to get the mask ?
Anthony
--- On Thu, 5/3/09, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: From: Bruce Fischl fischl@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] partial volume correction in mri_segstats To: "Anthony" slam_ono@yahoo.com Cc: freesurfer@nmr.mgh.harvard.edu Date: Thursday, 5 March, 2009, 9:33 AM
Hi Anthony,
it should be more accurate (and more reliable in our studies). It estimates the volume fraction of each tissue class on the border of the structure, assuming it is mixed with adjacent classes by estimating the local mean of the two tissue classes, then computing the mixing coefficients that explain the observed intensity. Thus for example if you have a dark hippocampal voxel bordering ventricle it will compute that the voxel has a fair amount of ventricle in it.
cheers, Bruce
On Wed, 4 Mar 2009, Anthony wrote:
Hi all,
In recon-all pipeline , mri_segstats runs with -pv mri/norm.mgz option ,as written from http://surfer.nmr.mgh.harvard.edu/fswiki/mri_segstats , it is used to compensate partial voluming. I wonder what exactly does this do, as
the
volumes given by aseg.stats are different from
aseg.mgz and why is it more accurate ? I will appreciate if anyone
could
help to clarify this .
Thanks
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