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Subject: Re: [Freesurfer] T2pial shrinks pial surface
it might, but you will need to make some fixes that are in 6.0 (soon) but not
in 5.3. The 5.3 recon-all changes the T2 datatype to uchar when it resamples it
to be in register with the T1. You should change that line to have -odt
urfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl
Sent: Tuesday, 8 March 2016 4:23 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
Hi Chris
I took a look, and the problem is that there are big changes in contrast between occipital
and frontal lobes.
2016 4:23 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
Hi Chris
I took a look, and the problem is that there are big changes in contrast
between occipital and frontal lobes. If we normalize both posterior and frontal
wm to 110, occipital gray matter gets
to:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Chris Adamson
Sent: Monday, 7 March 2016 1:54 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
It is checkT2pial.zip
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.m
Thanks Bruce.
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Chris Adamson
Sent: Monday, 7 March 2016 1:54 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
It is
It is checkT2pial.zip
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl
Sent: Monday, 7 March 2016 1:35 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
https
March 2016 1:25 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
Hi Chris
if you upload that dataset I'll try to take a look soon
cheers
Bruce
On Mon, 7 Mar 2016, Chris Adamson wrote:
The T2pial option mostly works beautifully. I have a few cases wher
How can I upload it to you?
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl
Sent: Monday, 7 March 2016 1:25 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
Hi
Hi Chris
if you upload that dataset I'll try to take a look soon
cheers
Bruce
On Mon, 7 Mar 2016, Chris Adamson wrote:
The T2pial option mostly works beautifully. I have a few cases where the
pial surface just shrinks globally and wraps over the white surface (see
attached). I have checked
5.3.0 stable
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Matt Glasser
Sent: Monday, 7 March 2016 11:50 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] T2pial shrinks pial surface
What FreeSurfer version are you using? Very
What FreeSurfer version are you using? Very small changes to the input
images (e.g. a different random see for FreeSurfer) may be able to kick
mris_make_surfaces out of that bug, though perhaps Bruce has fixed it.
Peace,
Matt.
From: on behalf of Chris Adamson
Reply-To: Freesurfer support li
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