There is not enough information to understand what you did in #2
On 8/30/2022 3:56 PM, Ruifeng Dong wrote:
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Hi all,
I am computing volumetry using freesurfer using two different runs.
1. I just use recon-all -all, and then look at the aseg.stats file.
2. I ran recon-all only to the 12th step where gca labeling is done.
It doesn't generate the aseg.mgz file but only aseg.auto.mgz. I
assumed that they are the same and ran the -asegstats step to get the
output in aseg.stats.
I noticed there are differences between the above two runs on the same
image. Firstly, the volumes of WM, GM and ICV are not there from the
2nd run. How does this happen? In which step does Freesurfer compute
these?
Secondly, the volumes of some subcortical structures are also
different between the two runs. Does Freesurfer make corrections to
the volume segmentations after step 12?
Thank you!
Ruifeng
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