Hi Marie,
Freesurfer version is: freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0;
Matlab version: 7.9.0 (R2009b).
Also when I open matlab I get warning that:
Warning: glibc 2.3.4 - Your version
glibc 2.3.6 - MATLAB built using this version
I have attached recon-all.log file and pial surface screenshots
Thanks for your time!
Best,
Giedre
From: Marie Schaer <marie.sch...@unige.ch<mailto:marie.sch...@unige.ch>>
Reply-To: Freesurfer support list
<freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>>
Date: Wednesday 4 March 2015 20:50
To: Freesurfer support list
<freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] lGI ?h.pial-outer-smoothed
Hi Giedre,
Can you send me just the pial surface of this subject, and the recon-all.log
(in the scripts folder) and I'll have a look. Please also let me know which
version of freesurfer you are running, and which matlab version.
Best,
Marie
On Mar 4, 2015, at 3:08 AM, "Stripeikyte, G."
<g.stripeik...@umcutrecht.nl<mailto:g.stripeik...@umcutrecht.nl>>
wrote:
Hi Marie,
Thanks for advice. I have attached a screenshot of overlaid lGI. I have at
least 4 subjects with extremely high values of total 106.
Best,
Giedre
From: Marie Schaer <marie.sch...@unige.ch<mailto:marie.sch...@unige.ch>>
Reply-To: Freesurfer support list
<freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>>
Date: Tuesday 3 March 2015 21:00
To: Freesurfer support list
<freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] lGI ?h.pial-outer-smoothed
Hi Giedre,
Small intersections like that are fine and won't affect the lGI computation, so
you are good with that. Values around 20 are however more preoccupying! Can you
send me a screenshot of the lGI overlaid on the surface for this subject using
tksurfer or freeview?
Best,
Marie
NB: if you are interested in thickness as well, you might want to correct the
segmentation in the parahippocampal gyrus for this subject (the "drop-shaped"
WM inclusion in the cortex).
On Mar 3, 2015, at 6:58 AM, "Stripeikyte, G."
<g.stripeik...@umcutrecht.nl<mailto:g.stripeik...@umcutrecht.nl>> wrote:
Dear freesurfers,
I am analysing localGI and noticed that sometimes scans with
?h.pial-outer-smoothed surface intersect ?h.pial surface (attached pic.). Is
this normal or should I correct parameters and rerun localGI? Also when I
extracted ROI lGI values I got some extremely high results. For example in
lh_insula and rh_insula, for some participants lGI reach about 20. Scans look
normal of these participants. Are such high values possible or something wrong
with calculation?
Sincerely,
Giedre
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