There are two things that are considered. One is the tesselation which smoothing is one. The other is the registration that is used. Using -target Something only specifies the smoothing target (if doing smoothing in mris_preproc). If you want to spec a registration target, you need to first run make_average_subject (which looks like you have done). Second, you need to run surfreg for each subject specifying your average subject with --t. This will create ?h.MyAverage.sphere.reg in each subject's surf folder. Then run mris_preproc with --surfre MyAverage.sphere.reg
doug On 11/13/2014 05:06 AM, Roberta Santoro wrote: > > Dear all, > > I created an average subject from my dataset and I would like to use > it to run a group analysis of thickness. I am using the command: > > recon-all -s subjid -qcache -target MyAverage > > When looking at the terminal, I noticed that the srcsurfreg and the > trgsurfreg are both sphere.reg: shouldn’t one of the two be > sphere.reg.MyAverage? Otherwise, how is the alignment achieved? > > Thanks for your help. > > Best, > > Roberta > > > > _______________________________________________ > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 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.
