[Freesurfer] EM Registration error

2013-12-29 Thread Mark Plantz
Hello freesurfers, Does anyone know the physical meaning of the transform matrix and the quasinewton matrix outputted during EM Registration of auto-recon2? For some odd reason, both of them are identity matrices (one's along the diagonal). I am almost certain that should not be the case.

[Freesurfer] transfer the Parcellation to MNI

2013-12-29 Thread 宋银南
Dear all, I want to extract the ROI defined by Desikan-Killiany Atlas and save it as a mask on the MNI space. I try to extract the vertex coordinates by the freesurfer_read_surf and transfer them to MNI. But which surface should I use? And maybe some better method. Thank you for the freesurfer,

[Freesurfer] freeview error

2013-12-29 Thread Rujing Zha
Hi Bruce and others, Thanks Bruce. I had installed the centos6.5 x86_64 in my computer, and setup the freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0.tar.gz, and I setup the nvidia drivers completely. Then I tried to run this command: freeview -f