Hi Brianna
if you upload a subject that is not doing well I'll take a look. Have you tried the -bigventricles flag?
cheers
Bruce
On Fri, 11 Jul 2014, Brianna Damadian wrote:
Hi Bruce, I'm using v5.3.0. Does this version do well with patients with large ventricles?
Two cases I ran seemed to do well with the ventricles, but some others seem to be running into some errors (which I
haven't had the time to work out yet).
So in your opinion, to get our desired measures of total gray matter and ventricular volume, we would not need to
create our own atlas?
Side question: Is there any literature on/do you happen to know what the margin of error for a measure like total
gray matter (taken from the aseg.stats header) is in Freesurfer?
Thanks,
Brianna
On Fri, Jul 11, 2014 at 10:34 AM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
Hi Brianna
yes, that would work (although you would use freeview or tkmedit).
Why do you feel you need a new atlas? Our latest version does quite well, even on subjects with very
very large ventricles. What version are you running?
cheers
Bruce
On Fri, 11 Jul 2014, Brianna Damadian wrote:
Hi Bruce, Would be interested in an atlas for aseg that gives total gray matter and
ventricle volume.
Would I be able to create an atlas based on these 30 patients with labeled volumes for just
these measures?
Additionally, my understanding of creating an atlas is very rudimentary - would I begin the
process by running
recon-all on these 30 scans and then manually editing the segmentations using tksurfer?
Thanks again,
Brianna
On Fri, Jul 11, 2014 at 10:14 AM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
Hi Brianna
what kind of atlas do you mean? If one for creating the aseg you will need
to have labeled volumes for creating a new atlas
cheers
Bruce
On Fri, 11 Jul 2014, Brianna Damadian wrote:
> Hello,
>
> I am interested in creating my own atlas for elderly patients with enlarged
ventricles. We have about
30 patients with axial MPR scans. Is this enough to build an atlas?
>
> Thanks,
> Brianna
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