Hi Alex,
if all you care about is surface area you can probably just copy the
wm.mgz from any subject into the fsaverage/mri dir. Other stats will of
course then be incorrect. You also have to be careful as the fsaverage
surfaces contain less surface area (due to averaging) than individual
subjects. There is a correction factor stored in the fsaverage surface
files you can use if you want, I think mris_info will print it out.
cheers
Bruce
On Fri, 5 Jun 2009, Alex Fornito wrote:
Hi,
I'm playing around with different ways of generating custom annotation files
using the fsaverage surface, and would like to estimate the surface area of
each ROI. I tried running mris_anatomical stats, but it seems to required
wm.mgz, which is not contained in the fsaverage directories (please see
below). Is there any way around this? I'm really just interested in
extracting the surface area for each label in my .annot file.
Thanks for your help,
Alex
mris_anatomical_stats -a lh.test.aparc.annot -f stats_table.txt -log
logfile.txt fsaverage lh white
computing statistics for each annotation in lh.test.aparc.annot
outputting results to logfile.txt...
reading volume /work/imaging5/af397/twins/fsaverage/mri/wm.mgz...
ERROR: cannot find /work/imaging5/af397/twins/fsaverage/mri/wm.mgz
mris_anatomical_stats: could not read input volume
/work/imaging5/af397/twins/fsaverage/mri/wm.mgz
No such file or directory
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