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Hello All, I have got an issue with the procedure for dealing with a fail talairach registration. Failed talairach happen quite often for us. I go through the whole procedure of manually registering. I follow the procedure outlined in the URL. https://secure-web.cisco.com/13NWWpMXxUVWAfIn9KlHlBzoCyjMJjY8qB8jWk4-Z8YLCNf... This never seems to work. Yesterday, I did some digging and I am a bit confused on the procedure and how it even works..
In the step where we run tkregisterfv --s tal_before --fstal
When saving the transform it saves in the lta format. The file that need to be replaced is talairach.xfm. There is no way to save in a xfm format; if there is I could not figure it out. The talairach.lta is generated in the beginning of the autorecon2 step and is also a transform to register to a different target. After running the recon-all transform.xfm does not update. I followed the direction.
Furthermore, the part were your check the registration with the command
freeview -v tal_before/mri/T1.mgz -v tal_before/mri/brainmask.mgz:reg=tal_before/mri/transforms/talairach.xfm
T1.mgz and brainmask.mgz are always registration. should the command be
freeview -v fsaverage/mri/T1.mgz -v tal_before/mri/brainmask.mgz:reg=tal_before/mri/transforms/talairach.xfm
Please correct me. I know I am completely misunderstanding things.