Dear All, We have been running the recon-all pipeline in 5.2 and have been encountering some difficulties with segmentations. We have isolated these issues to problems with Talairach registrations, and have been re-running recon-all with the Talairach registrations manually corrected in tkregister2; however, doing so appears to worsen our segmentation problems. In particular, the orig surface appears substantially shrunk away from the filled and white matter volumes.
Has anyone encountered such difficulties with manually corrected Talairach registrations placed in the processing stream, or indeed, seen the surface shrink to such an extent? We initially provided recon-all with synthesised volumes obtained using MRI-synthesise from the developer version (our raw scans are high-resolution PDw and T1w volumes). Any insights would be greatly appreciated. Many thanks, Dan --- Daniel Carey, M.Sc., Marie Curie PhD Fellow, Centre for Brain and Cognitive Development, Birkbeck College, 32 Torrington Sq., London, WC1E 7JL UK _______________________________________________ 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.
