Hi,
I'm hand editing brains to get the most accurate cortical thickness analysis
possible, and ran into a bit of a problem with surface lines. One issue is with
the original structural reconstructions from the hdr files, and the other deals
with the manual edits I've made when the recon was re-
Of Kriegel, Jennifer
Lynn Sarai
Sent: Wednesday, August 19, 2015 10:44 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] surface lines in manual edits
Hi,
I'm hand editing brains to get the most accurate cortical thickness analysis
possible, and ran into a bit of a problem
freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Kriegel, Jennifer
Lynn Sarai
Sent: Thursday, August 20, 2015 7:08 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] surface lines in manual edits
Hi Freesurfer experts,
I asked this question yester
Behalf Of Kriegel,
Jennifer Lynn Sarai
Sent: Thursday, August 20, 2015 7:08 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] surface lines in manual edits
Hi Freesurfer experts,
I asked this question yesterday. I ended up seeing that a similar question
had been asked in July, and spoke
to:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Kriegel,
Jennifer Lynn Sarai
Sent: Wednesday, August 19, 2015 10:44 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] surface lines in manual edits
Hi,
I’m hand editing brains to get the most accurate cortical thickness
analysis
possib
ubject: Re: [Freesurfer] surface lines in manual edits
After taking a look through some of these subjects, it appears there is low
contrast between white and gray matter. The gray matter has higher intensity
than what is normally expected by Freesurfer. Re-running the subjects with
expert options that
t: RE: [Freesurfer] surface lines in manual edits
Hi Jennifer,
The mri_segment command only creates a volume file that is similar to wm.mgz,
it doesn't reproduce the surfaces. You can think of it like a command that
adds or removes voxels from the wm.mgz based on intensity values in the
bra
