Re: [Freesurfer] Ex-Vivo Surface Misoriented in tkmedit, but not Freeview

that the surface registration is starting with the surface misoriented like it is in tkmedit. John --- John Plass Ph.D. Candidate Visual Perception, Neuroscience, and Cognition Lab Northwestern University On Tue, Mar 1, 2016 at 7:38 AM, Bruce Fischl wrote: > Hi John > > this is prett

Re: [Freesurfer] Ex-Vivo Surface Misoriented in tkmedit, but not Freeview

Hi Bruce, Thanks for your help. In freeview, the surface outline overlays on the volume correctly, and both the volume and the surface are oriented correctly in terms of R-L, A-P, and S-I axes. In tkmedit, the volume is oriented correctly, but the surface appears to be oriented with some of the axe

[Freesurfer] Ex-Vivo Surface Misoriented in tkmedit, but not Freeview

Hello Freesurfer Experts, I wrote in recently about my parcellation troubles with an ex-vivo scan ( link ). Digging further, I've found that the surfaces I've produced following the Ex-Vivo recon instructions

Re: [Freesurfer] Ex-Vivo Brain: Dark Surface in Freeview; Bad Surface Registration

0 0.0000 0. 1. --- John Plass Ph.D. Candidate Visual Perception, Neuroscience, and Cognition Lab Northwestern University On Wed, Jan 27, 2016 at 1:43 PM, Douglas N Greve wrote: > I don't know how that could have happened. Is the geometry of the > exvivo input oriente

Re: [Freesurfer] Ex-Vivo Brain: Dark Surface in Freeview; Bad Surface Registration

d have been lying in the > scanner, you will need to reorient the data so that we know what e.g. > anterior is > > cheers > Bruce > > On Tue, 26 Jan 2016, John Plass wrote: > > > Hello, > > I've been following the Ex-Vivo Recon instructions > > https

[Freesurfer] Ex-Vivo Brain: Dark Surface in Freeview; Bad Surface Registration

, please let me know what and where to upload. Thanks very much for your help. Best regards, John Plass ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-m