These numbers are output automatically in the aseg.stats file in v6, eg,
# Measure lhSurfaceHoles, lhSurfaceHoles, Number of defect holes in lh surfaces prior to fixing, 17, unitless # Measure rhSurfaceHoles, rhSurfaceHoles, Number of defect holes in rh surfaces prior to fixing, 12, unitless # Measure SurfaceHoles, SurfaceHoles, Total number of defect holes in surfaces prior to fixing, 29, unitless
They will be included as global measures when you run asegstats2table
On 07/12/2018 11:01 AM, Bruce Fischl wrote:
Hi Lea
the Euler number is an integer, so it will never be 2.5. In fact, in our reconstructed surfaces it will always be exactly 2, except for the *nofix* surfaces, as we explicitly correct the topology of the surfaces (see the Automated Manifold Surgery paper if you are interested in the details)
cheers Bruce
On Thu, 12 Jul 2018, Backhausen, Lea wrote:
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Hey Freesurfer Experts,
I would like to use the Euler number as a quantitative quality measure of my reconstructed data as Rosen et al. (2017) recommend in their recently published paper. https://www.sciencedirect.com/science/article/pii/S1053811917310832
I figured I can use:
mris_euler_number [<options>] insurf to get the euler number for each data set.
Which surface should I use though? The white or pial surface area or is there no preference?
Does anybody have experience with what range of Euler number would be acceptable? I read that 2 would be perfect but is 2.5 still ok? Or 1? Somehow I could not find any recommendation in the Rosen paper about thresholds or something similar. Did I miss something?
Any advice would be highly appreciated! Thanks!
Best, Lea
Lea Backhausen, B.Sc.
Student Research Assistant
Klinik und Poliklinik für Kinder- und Jugendpsychiatrie und –psychotherapie Tel. +49 (0)351 458-7166 Fax +49 (0)351 458-5754
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