Hi Jonah
when we compute volumes we typically use a partial-volume model, which we
have found improves accuracy and repeatability. That may be the source of
your discrepancy
cheers
Bruce
On Wed, 22 Apr 2020, Peter, Jonah wrote:
Hello,
I'm trying to generate surface meshes for different brain regions that can
be imported into a software like MeshLab or Blender (i.e. .STL, .PLY, .OBJ,
etc.). I ran recon-all on my T1 images, and the parcellation/segmentation
looks fine. However, I noticed that when I imported this data into 3DSlicer,
the volumes of these regions did not match the volumes in the aseg.stats
file. In some cases, the differences were quite substantial. I tried
removing all smoothing filters in 3DSlicer but the outcome was the same.
Do you know what could be going wrong here? Alternatively, is there an
easier way to generate surface meshes from the aparc or aseg atlases?
I'm using the ICBM 2009c Nonlinear Asymmetric
template (http://nist.mni.mcgill.ca/?p=904) as a generic brain volume
(though alternative suggestions are welcome).
Thanks!
Jonah
--
Jonah PeterGraduate Student in The Biophysics ProgramHarvard University
P: 646-306-0848
E: jonahpe...@g.harvard.edu
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