Re: [Freesurfer] error in the visualization of the parcellation

2005-02-03 Thread Kevin Teich
Can you send me the annotation file? On Thu, 3 Feb 2005, Wan Park wrote: hi, i am using a mac G5. after successfully doing the talairach (thanks tosa and quinn) i went through and i did the parcellation: (last part) labeling surface... relabeling using gibbs priors... 000: 12553 changed, 169800

Re: [Freesurfer] averaging brains over two sessions

2005-02-03 Thread Bruce Fischl
Hi Margaret, mri_motion_correct calls the mni rigid body alignment code. Use it as: mri_motion_correct... cheers, Bruce p.s. you still are probably better off just using one volume. There's no difference in processing, but more manual intervention will probably be needed. On Thu, 3 Feb 200

[Freesurfer] error in the visualization of the parcellation

2005-02-03 Thread Wan Park
hi, i am using a mac G5. after successfully doing the talairach (thanks tosa and quinn) i went through and i did the parcellation: (last part) labeling surface... relabeling using gibbs priors... 000: 12553 changed, 169800 examined... 001: 3181 changed, 48112 examined... 002: 1021 changed, 1

Re: [Freesurfer] averaging brains over two sessions

2005-02-03 Thread Doug Greve
The best thing is to follow the instructions in recon-all -help. recon-all will automatically use mri_motion_correct2. Basically, you just need to put your two scans in mri/orig/001 and mri/orig/002. However, if there is an artifact (as Ev suggests), then you'll have to use just one of the scans.

Re: [Freesurfer] averaging brains over two sessions

2005-02-03 Thread Margaret Duff
Hi, Both images are from here on the old bay 2 scanner, they just occurred 1 month apart. Could you describe a little for me how to use mri_motion_correct and how it differs from setup structural scans in csurf? I checked the wiki, but it did not have tons of info. Also, what are the major diff

Re: [Freesurfer] talairaching functional data

2005-02-03 Thread Doug Greve
You're better off using mri_vol2vol. There are lots of docs with --help, including how to convert a volume into talairach space. doug Joongnam Yang wrote: > > Hi, > > I ran "func2tal" with functional data (*.img) and got > > INFO: autodetected functype raw > ERROR: only selxavg, selavg, and