There are few differences between this tutorial and the previous one; however, it is worth reemphasizing that, as the results have been interpolated onto another surface, one should not perform statistical analyses on these surface maps - use them for visualization purposes only. The correct approach for surface-based analyses is to perform all of your preprocessing and statistics on the surface itself, a procedure which will later be discussed in greater detail.
A couple of other notes:
1) Use the '.' and ',' keys to toggle between views such as pial, white matter, and inflated surfaces. These buttons were not discussed in the video.
2) I recommend using SPM to generate cluster-corrected images before overlaying these onto SUMA. That way, you won't have to mess with the threshold slider in order to guess which t-value cutoff to use.
More AFNI to come in the near future!
I think you just saved my life! Thank you. This is so helpful!
ReplyDeleteHey Mark, glad to hear it! We aim to please.
DeleteHi Andrew - Any idea where you can download different surfaces to map results onto? I used the link in your youtube post but it seems to only give slightly inflated versions of the brain (not the full inflation you had in your video example) - or maybe I'm doing something wrong? Thanks for all of this, saved my life as well! (https://www.youtube.com/redirect?q=http%3A%2F%2Fafni.nimh.nih.gov%2Fsscc%2Fstaff%2Fziad%2FMisc_Download%2Fsuma_mni.tgz&redir_token=vWlgrjesprV6643enDida1rFo3V8MTQxMjc4NDQ3MEAxNDEyNjk4MDcw)
ReplyDeleteHey there,
DeleteThat link may be a little old, and they may be using something new. However, I think it should still work. Have you tried using the '.' and ',' keys to toggle between different views? That might help.
-Andy
Hi Andrew,
ReplyDeleteDo you know if there is anyway I can export the overlay out in the form of "value-at-each-surface-vertex"? Ideally in the same format as the surface file used in Freesurfer?
Hey there,
DeleteI haven't done that, but you should look into 3dVol2Surf and Freesurfer's mri_convert. Those are my best guesses.
-Andy
3dVol2Surf works great, thanks for the tip
DeleteThank you! What did you press to inflate the brain?
ReplyDelete