Dear Freesurfer experts,
I successfully run a hippocampal subfield segmentation on anatomical data of one subject (resolution 1 mm^3). Now I am building hippocampal subfields masks. I used the FreeView interface to load the mgz volume files of hippocampal subfields. I saved each subfield separately, binarized and transformed it in my dimension space through marsbar (spm8).
I tried as well the mri_binarize command with the codes for hippocampal subfields, but the extracted masks were strangely empty (no voxels found). Is this a right way and the simplest way to build hippocampal subfields ROIs? Is there any apparent error in these procedure? Binarized mask might overlap, is there any suggested threshold?
Thank you very much, greets,
Lorenzo Pasquini