Hi, I had a question in reference to the following message (posted by Nick Schmansky):
"1. in freesurfer v5, there are now multiple fsaverage subjects with varying number of vertices. fsaverage6 has about 40,000 vertices per hemi, so you can just include the flag:
--target fsaverage6
after the -qcache flag, and it will use that as the target instead of fsaverage (producing files like 'rh.thickness.fsaverage6.mgh', which will have 40K thickness samples)."
As I was also interested in trying this out, I ran the following in v5:
recon-all -qcache -target fsaverage6 -s $subject
However, recon-all failed to find fsaverage6, and I also couldn't manually find it in $FREESURFER_HOME. If this is included in the current distribution, where do I need to look?
Thanks,
Aaron
i was mistaken... fsaverage6 is not in v5.0 (but will be included in v5.1).
you can get the fsaverages from here though:
ftp://surfer.nmr.mgh.harvard.edu/pub/data/fsaverages.tgz
n.
On Wed, 2010-11-10 at 16:03 -0500, Goldman, Aaron (NIH/NIMH) [C] wrote:
Hi, I had a question in reference to the following message (posted by Nick Schmansky):
“1. in freesurfer v5, there are now multiple fsaverage subjects with
varying number of vertices. fsaverage6 has about 40,000 vertices per
hemi, so you can just include the flag:
--target fsaverage6
after the -qcache flag, and it will use that as the target instead of
fsaverage (producing files like 'rh.thickness.fsaverage6.mgh', which
will have 40K thickness samples).”
As I was also interested in trying this out, I ran the following in v5:
recon-all -qcache -target fsaverage6 -s $subject
However, recon-all failed to find fsaverage6, and I also couldn’t manually find it in $FREESURFER_HOME. If this is included in the current distribution, where do I need to look?
Thanks,
Aaron
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Goldman, Aaron (NIH/NIMH) [C] -
Nick Schmansky