--pdf delta expects the column row and slice indices of the vertex where you want the delta to go (you are supplying an RAS). You need to determine the index

On 8/12/2020 8:22 PM, Mauricio Watanabe Ribeiro wrote:

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Hi Freesurfers, I'm trying to create a ROI based on peak significance voxel from a paper. They reported a peak at X=21, Y=-71, Z=22 and area of 4,620 mm², based on MNI305. My idea was creating a sphere ROI around this voxel and check its area in the brain image. To do so I'm using the following command: mri_volsynth --template $SUBJECTS_DIR/fsaverage/mri/brainmask.mgz \ --pdf delta --c_ras 21 -71 22 --res 1 1 1 1 --dim 7 7 7 1 --o ROI.sm00.mgh

I also tried with --c_ras 107 106 57, that is the value of this point on brainmask.mgz

However, when I visualize the surface created with freeview my ROI is always in the center of the brainmask.mgz. And if I try to smooth this surface using mris_fwhm it exits with error.

Can someone help me with this?

Thanks, Mauricio

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