Hi Andrew
that is to be expected. It's because the cortex is blurred in the MNI template, and so a ROI there is likely to cut across a gyrus or sulcus, missing either the fundus or the crown (both of which seem to be happening in your ROI)
cheers Bruce On Fri, 28 Oct 2016, Andrews, Derek wrote:
Hello Freesurfer Developers and Community,
I am looking to map a ROI.nii based on the MNI152 template to the fsaverage pial surface.
I have used the following commands
Bbregister —s fsaverage —mov MNI152.nii —reg register.dat —init-fsl —12 —t1
Then
mri_vol2surf —src ROI.nii —out ROI.mgh —srcreg register.dat —hemi lh
The ROI appears to be in the right place however is very blotchy. Have I missed a step? Or is this correct?
See bellow a picture of the ROI highlighted in FSL and in tksurfer after mapped using the above.
Thank you for your support,
Best, Derek
[IMAGE]
Derek Sayre Andrews, MSc PhD Candidate
The Sackler Institute for Translational Neurodevelopment
Department of Forensic and Neurodevelopmental Sciences
Institute of Psychiatry, Psychology & Neuroscience, King's College London
Telephone: +44 (0)20 7848 5701 Email: Derek.Andrews@kcl.ac.uk