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Hi gang, I have downloaded head MRIs of 1000 subjects from ADNI, together with their FreeSurfer generated aparc+aseg.mgz files. I'm using them in a 3D deep learning network. These MRIs are 256 x 256 x 256, which is too large for GPU training. Therefore, I'm trying to pre-process the volumes by putting a bounding box around the brain, crop the image, and then resize it to a smaller size (e.g. 64 * 100 * 100). To put the bounding box around the brain, I need the brain mask. I don't have access to the brainmasks of these subjects, so I'm trying to use mri_extract_label to make brainmasks for them. Is there a way to tell mri_extract_label to put together all labels in one volume? Best regards, Arman
Arman Avesta, MD Radiology Resident & PhD Student Yale School of Medicine & Yale Graduate School of Arts and Sciences
Email: arman.avesta@yale.edu