[FieldTrip] Small Issues with the 15684 Mesh Creation Procedure

Paolo Belardinelli paolo.belardinelli at gmail.com
Wed Oct 2 11:35:33 CEST 2019

Dear all,
I would first like to thank Jan-Mathijs for the massive work on the mesh
I encountered a couple of minor issues while implementing the whole process:

1. In some subjects, after saving the .mgz file with Fieldtrip (including
acpc coordinates and reference point), the image is slightly shifted
towards the superior side of the frame by mriconvert (mri_convert -c -oc 0 0
0 $SUBJECTNAME.mgz orig.mgz). This implies that the upper part of the brain
is being chopped and the further segmentation process with recon -all makes
no sense anymore. Has anyone the same issue?

2. As far as I understand, an average, atlas-mapped mesh where to visualize
pooled results is not generated. What would be a straightforward way of
visualizing group results in standard coordinates?

Best wishes,


Paolo Belardinelli, PhD
Neurology Department
University Hospital Tuebingen
Eberhard Karls University Tuebingen
Hoppe-Seyler Str. 3
D-72076 Tuebingen
Tel: +49 7071 / 29 80478
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