On 4/26/15 12:03 AM, Paul Dhami wrote:
Greetings FS experts,
I'm currently getting myself familiar with FS, and thus was going
through the processing of a few subjects. I have one subject whose
anatomical is not aligned with the horizontal/x axis, as seen right
after reconstruction of the raw dicom files.
I don't know what this means. Can you elaborate?
I however did recon-all with this subject. I then went through the
manual checking as described through the tutorial, and the results
looked ok, such as pial and wm boundaries, as well as the surface
inflations.
I then looked at the Talairach registration fix page described here
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach_freeview
However, using tkregister, I noticed that the TARGET and MOVEABLE were
aligned quite well, although both were still not aligned with the x
axis (I've attached the images). The same alignment issues were also
found when viewing the various files through freeviewer (e.g. inflates
surfaces).
Do you mean the rotation? That is normal and not a problem.
I wanted to ask that in this case, would the registration be
considered "ok", as in such preprocessed data could be passed through
group analysis? Or is there a way in FS to align the anatomical before
passing it through recon-all that would be best for the results?
This looks ok to me.
doug
Sorry for what may seem like a very basic question, but any input
would be great. Thanks.
Paul
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