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Nothing jumps out as being horribly wrong with the image. The frontal cortex looks like it extends beyond the mask, but the rest of the brain looks fine. As you mentioned that you used FSL for normalization, I would ask the normalization question on their list. I would have expected more activation in the primary cortex of the modality being stimulated as you are comparing the task to rest. Best Regards, Donald McLaren ================= D.G. McLaren, Ph.D. Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School Postdoctoral Research Fellow, GRECC, Bedford VA Website: http://www.martinos.org/~mclaren Office: (773) 406-2464 ===================== This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773) 406-2464 or email. On Fri, Jun 12, 2015 at 8:28 AM, Joelle Zimmermann < [log in to unmask]> wrote: > Hi All - I've ran a simple SPM analysis, and I notice that in the > outputted plots of the brains (please see attached), the dark dots > (representing activations) appear to be outside the edges of the brain. I'm > assuming this is not okay? > > My suspicion is that this is because the normalization was not done well. > Please also see the second attachment, which is the standard MNI template > (in red-yellow), overlaid over the normalized 4D functional image. > > Thanks, > Joelle > > >