Hi Jon, it is not supposed to be horizontal. The anatomy in the target is just supposed to match that in the moveable. doug ps. please respond to the list. thanks!
On 03/26/2013 02:35 PM, Jon Wieser wrote: > HI doug, > i viewed it with tkregister2. the transform looks poor, the ac-pc line is not > horizontal. > i have attached a pic > Jon > > ----- Original Message ----- > From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> > To: freesurfer@nmr.mgh.harvard.edu > Sent: Tuesday, March 26, 2013 11:28:01 AM > Subject: Re: [Freesurfer] recon-all bad talairach > > Hi Jon, the data are not reoriented or resliced into talairach space. It > is just the transform that is computed. To inspect whether this was done > right, use > > tkregister2 --s subject --fstal > > doug > > > On 03/26/2013 12:20 PM, Jon Wieser wrote: >> Hello >> I ran recon-all auto_recon1. and the resulting brainmask file, has a poor >> talairazation. the ac-pc line is not horizontal, it's tilted, and the >> interhemisphere fissure is tilted too. how do I fix this? >> I have attached a picture of the brain >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
