> Date: Thu, 14 Jul 2016 10:35:43 -0400 (EDT) > From: Lilla Zollei <lzol...@nmr.mgh.harvard.edu> > Subject: Re: [Freesurfer] CVS question > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Message-ID: > <alpine.lrh.2.20.1607121530370.50...@semmelweis.nmr.mgh.harvard.edu> > Content-Type: text/plain; charset="utf-8" > > > Hi Michael, > >> I want to compare two populations using CVS so I can cross-register >> multimodal maps (e.g. ASL, FA, QSM) for volumetric comparisons. >> >> I?ve gotten CVS to work very well registering one subject to another, it >> really is impressive >> >> However, using the --mni option, it doesn?t work so well, perhaps because >> the atlas is so averaged together and smoothed out, the images look highly >> warped. >> >> I know I can pick a subject at random, and register everything to that, but >> that may induce some biases. The following website suggests I might try >> simply creating my own atlas (under the answers to Nov 2014 course >> questions):?https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/QuestionAnswers >> >> Seems like they register 40 subjects with each other for multiple >> iterations, average the brain together, then run recon-all on that. How does >> one actually do that, however? i.e. 1st round, register everyone to subject >> 1 ? then what? Seems like somehow you would want a registration intermediate >> point somehow? > > Have you tried to use the default cvs atlas? If you do not indicate any > explicit targets that is what will get used. I think that might be a > solution that you are looking for. > > Lilla > > ------------------------------ >
Thank you, I happened to try that after I had sent this help request, and yes, it works much, much better. The transformation to MNI space is highly warped, that I realize was the problem. Thank you for your help. _______________________________________________ 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.
