Hi Maria,
if the warp around is such that the wrapped part of the brain ends up outside the brain but on the other side of the FOV, you can maybe fix it partially (e.g., if the frontal cortex is wrapped to the back but not into the occipital cortex). You would just need to copy the respective rows from the back to the front of the image before any processing of the data (use MRIread in Matlab). However, the data will be unreliable; this may only help with alignment of images etc., but I wouldn't try to analyze the data in any way.
Caspar

2013/6/6 Bruce Fischl <fischl@nmr.mgh.harvard.edu>
Hi Maria

if the brain wraps from back to front then it can't be recovered. Nothing
to do with the analysis - the imaging data itself is corrupted.

sorry
Bruce
On Thu, 6
Jun 2013, Maria Kharitonova wrote:

> Hello,
>
> We have a relatively small FOV in our study because we mostly scan kids. Sometimes we scan adults with the same protocol, though, and after looking through the adults' reconned brains, I've noticed wrap-around on some brains. For one subject it's particularly bad; it affects aparc labels, where the very back of the brain gets labeled as orbitofrontal cortex. Is there a way to remedy this (other than increasing the FOV for subsequent subjects)? E.g. manually relabeling the affected regions?
>
> I'm pretty new to FreeSurfer, so I apologize in advance if this questions is naive.
>
> Thanks!
>
> Maria Kharitonova, Ph.D.
> Postdoctoral Research Fellow
> Laboratories of Cognitive Neuroscience
> Boston Children's Hospital
>
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.