Re: [Freesurfer] surfstat maps using freesurfer outputs on skull-stripped data

You can map it onto fsaverage, which is made only from 40 subjects, so there is a little more folding

On 01/09/2018 06:27 PM, Duran, Tugce wrote:

Total N is 159. I have min # of 52 subjects for certain analyses. I used avgsubj. lh/rh.pial and lh/rh.thickness.10.mgh for reading surface and thickness data. Can the visualization issue be fixed?

Thanks! Tugce

durant@iupui.edu

On 1/9/18, 6:19 PM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N Greve" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of greve@nmr.mgh.harvard.edu> wrote:

 This is not entirely unexpected as the volume-based average of pial
 surfaces will lose folds as you add subjects. How many subjects do you
 have? Note that this is only a visualization issue if all your
 underlying analysis is done on the surface.


 On 01/08/2018 01:14 PM, Duran, Tugce wrote:
 >
 > Hi FS experts,
 >
 > I’m running SurfStat on my freesurfer skullstriped data (recon-all
 > with –noskullstrip flag) and getting pecan shaped brain images as
 > shown in the attached file.
 >
 > Do you know what freesurfer process (make_average_subject or glm or
 > other)  is causing this issue?
 >
 > Thanks!
 >
 > *Tugce Duran, B.S.*
 >
 > /Research Technologist II/
 >
 > cid:image001.png@01D3861A.789F16C0
 > <https://medicine.iu.edu/departments/neurology/research/>
 >
 > Indiana Alzheimer Disease Center (iADC)
 >
 > Office: 317-278-7015
 >
 > durant@iupui.edu <mailto:durant@iupui.edu>
 >
 >
 >
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