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Hi, I've been searching through the forum, trying to figure out why my target ends up in a weird oblique position when rotated to MNI space. Because I work with a pediatric population, I have been using the '-t' option, though now running with '-T' to see if that works any better. My RL,AP, and SI seem appropriate. Furthermore, despite the bizarre final position, the all_FA images seem in line with each other, it is just this last step of target to MNI that seems to be mucked up. I have recently upgraded to 4.04 from 3.39, and never seemed to have this problem in the old version. I should note that I am using a target image I've never used before. Since the registration of my entire dataset takes so long, do you think I should flirt some potential targets to MNI before running tbss_2_reg? Can you think of what this may be due to? Cheers, Conrad