Hi,
I have been running FSL-VBM analyses and was able to extract 128 brains (half patients and half controls) successfully using fslvbm_1_bet -N script. However, when I continued onto the second step by using fslvbm_2_template -n script, 30% of the brains gave wrong orientations and some were even loaded in wrong views after registration (checked by going through each volume of the "template_GM_4D" image in struc folder in fslview). Could you help explain any possibilities why this happened?
Thank you in advance,
Lishu
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