Definitely #2. You should use the xhemi tools http://surfer.nmr.mgh.harvard.edu/fswiki/Xhemi First run them through recon-all as normal, then follow the steps on the wiki. Contact the list again to get instructions for the final analysis.
doug On 02/13/2014 08:23 AM, Paola Valsasina wrote: > > Dear List, > > we are starting the analysis of cortical thickness for a group of > patients who have only one side affected. The majority of patients > have the left hemisphere affected, but some patients have the right > hemisphere affected. In order to do a group analysis, we would like to > flip the images of some patients, so that the affected side is left > for all subjects. > > Which is the best way to do this: > > 1)flip the 001.mgz volume and perform the entire recon-all pipeline > with flipped images; > > or > > 2)perform the recon-all pipeline with the non-flipped volumes and flip > only the final surfaces for statistical purposes? > > Thank you for any suggestion > > Kind regards > > Paola > > > > _______________________________________________ > 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.
