p.s. although in this case I think it won't hurt to always pass that
parameter since it is only used for the flair/pial stuff
On Fri, 24 Jul
2015, Antonin Skoch wrote:
> Dear Kalyan,
>
> do you use standard pial surface reconstruction via T1 images, or optional
> pial
> surface refinement with
Hi Antonin
that's a good point and something we probably need to fix.
Bruce
On Fri, 24 Jul
2015, Antonin Skoch wrote:
> Dear Kalyan,
>
> do you use standard pial surface reconstruction via T1 images, or optional
> pial
> surface refinement with T2/FLAIR images?
>
> I had similar problems wit
Dear Kalyan,
do you use standard pial surface reconstruction via T1 images, or optional pial
surface refinement with T2/FLAIR images?
I had similar problems with FLAIRpial surface refinement. The corrected pial
surface appeared jagged and some areas were artificially cut out (whereas they
were
8:26 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Question about pial surface correction through
Freesurfer
Hello Kalyan,
A few questions:
-Is this an error you see frequently in your scans, or just a one-off type
of error?
-Is it always in the same places anatomically?
-Did you ma
le then to combine corrected pial surfaces with the original WM surfaces?
Thank you,
Kalyan
From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Ani Varjabedian
Sent: Thursday, July 23, 2015 8:26 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Question about pi
Hello Kalyan,
A few questions:
-Is this an error you see frequently in your scans, or just a one-off
type of error?
-Is it always in the same places anatomically?
-Did you make sure to put the control points in areas that were 100%
white matter, and that had intensity values < 110 ? If you
Hi,
I am trying to manually correct some segmentation errors through Freesurfer. In particular, I have noticed a number of areas where the pial surface appears to miscalculated and is excluding chunks of grey matter. I tried using control points to push the
pial surface out, and this helped
