Hi all,
I want to measure cortical thickness in 7 volume-defined ROIs (created in Marsbar). I followed the tutorial http://freesurfer.net/fswiki/VolumeRoiCorticalThickness. When I want to visualize my surface-based ROI after mri_vol2surf, for some reason ROI 6 and 7 do not appear in tksurfer (and with segstats, no segmentation is found). FreeSurfer does not seem to give any error message:
$ mri_vol2surf --mov ~/Desktop/anita-vumc/7Rmidtempgyrus.nii --reg avg152T1_to_fsaverage.dat --projdist-max 0 1 0.1 --interp nearest --hemi rh --out rh.fsaverage.7Rmidtempgyrus.mgh --reshape
srcvol = /home/guest/Desktop/anita-vumc/7Rmidtempgyrus.nii srcreg = avg152T1_to_fsaverage.dat srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = 0.5 reshape = 1 interp = nearest float2int = round GetProjMax = 1 INFO: float2int code = 0 Done loading volume Reading surface /data1/projects/ysbrand-vumc/pddatabase-freesurfer/fsaverage/surf/rh.white Done reading source surface Mapping Source Volume onto Source Subject Surface 1 0 0 1 using old 2 0.1 0 1 using old 3 0.2 0 1 using old 4 0.3 0 1 using old 5 0.4 0 1 using old 6 0.5 0 1 using old 7 0.6 0 1 using old 8 0.7 0 1 using old 9 0.8 0 1 using old 10 0.9 0 1 using old Done mapping volume to surface Number of source voxels hit = 21723 Reshaping 7 (nvertices = 163842) Writing to rh.fsaverage.7Rmidtempgyrus.mgh Dim: 23406 1 7
Does anyone have an idea about what might have gone wrong?
Thanks!