The problem with the ICV calc in v5.1 is explained in the v5.1 Known Issues section of the ReleaseNotes page, which i've also just updated with notes on a workaround:
https://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes the workaround is to type these commands: cd subjid/mri talairach_avi --i nu.mgz --xfm transforms/talairach.xfm recon-all -s subjid -segstats this re-runs that talairach using the nu corrected image as input (which was how it was done prior to v5.1 and is how it will be done in v5.2), then regenerates the stats, where the one item that will change in the aseg.stats file will be the ICV (eTIV) calc. Nick On Tue, 2012-08-14 at 10:53 -0600, Cheryl McCreary wrote: > Dear fs Experts, > > > In the most recent Freesurfer Digest (vol102, Issue13), a question > regarding ICV calculations in version 5.1.0 was raised (message 4). > Can you please expand on the problems with this? I am using version > 5.1.0 and the estimate of ICV is of interest. > > > Thanks, > > > Cheryl McCreary > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ 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.
