Thanks Doug!
I am manually segmenting the fusiform gyrus into anterior and posterior
portions and save the segmentation. Then use mri_segstats to obtain the
volumes. I have two problems.
(1) segmented volumes (sum of anterior + posterior fusiform), total
volume from mri_segstats (#1007
ctx-lh-fusiform or #2007 ctx-rh-fusiform), total volume from
".stats" files (rh.aparc.stats, lh.aparc.stats) do not match one
another.
(2) in tkmedit, "save segmentation as" does not save my segmentation
job. In a directory that I created, I see COR image files but I cannot
view them in tkmedit and I cannot extract any volume using mri_segstats
(the results are all 0s). However, two things worked for me: (a) if I
just use "save segmentation" in the exisiting aparc+aseg.mgz, I can
load it and see my segmentation job and get a volume using mri_segstats
from aparc+aseg.mgz; (b) although "save segmentation as" did not work
for the fusiform, but it worked for the hippocampus, which I tried as a
test.
Thanks for your advice in advance!
Regards,
Yunjo
Douglas N Greve wrote:
Use
the surface-based stats file (?h.aparc.stats) for cortical structures,
use aseg.stats for subcortical gray matter, and wmparc.stats for the
white matter.
dogu
Yunjo Lee wrote:
Hi Doug again,
I have a quick question related to my previous one.
Then which one is more accurate, for example, mri_segstats from
aparc+aseg.mgz or aseg.stats, rh.aparc.stats? I got a bit confused by
which one you meant by "stats files".
Thanks,
Yunjo
Doug Greve wrote:
The stats files are computed with partial
volume correction.
doug
On Thu, 15 Jul 2010, Yunjo Lee wrote:
Hi,
I am a new user of FreeSurfer and trying to figure out gray matter
segmentation. A volume that I extracted from aparc+aseg.mgz using
mri_segstats did not match the volume reported in /stats/ text files
(for example, aseg.stats, rh.aparc.stats). Even without specifying a
mask in mri_segstats, there's always a discrepancy of 100 voxels or
something. Where do the numbers in /stats/ files come from? Aren't they
from aparc+aseg.mgz?
Thanks!
Yunjo
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