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Any idea on how to fix these longitudinal issues? Le jeu. 15 avr. 2021 à 09:44, Malo Gaubert <malogaub...@gmail.com> a écrit : > Hello FreeSurfer developers, > > I am trying to apply longitudinal processing on T1w MRI data for two > timepoints (~8 months between the two TP) in adolescents in order to > perform vertex-based analyses. > I am following the online tutorial here for the preprocessing: > https://secure-web.cisco.com/1IwJ6r9Ol7EwIFzr95thkIZsG2GrLo1ZwnkxohOg27el5x_nsMCN2iOUxbu2XgIdjijM3l0_WnUDmvcFZjKZ1g6-mRKwDgYdX-FY1Pn2luoMv6X6CT5n7jj3ga8uYnJaRlGkDwjewb0YY8FIbRmmdyTC1WuEqU8ZatORb_DNW6W6Qi85SeSidy7sE0MNdkPsluC2kaFZakrS6xBL3XtHUogc_rnzkTjGzNBs194DeYYK1BIdsa04dwLRdZ9kBv749KsrqP1Vyi8Kx6kdcTCwZkg/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FLongitudinalTutorial > Thus I launched the creation of BASE followed by the LONGITUDINAL. > Everything went well for recon-all for these 3 steps. > Now, I want to do the QA on the data and I have two questions regarding > this QA: > > 1/ For one subject, for the two timepoints, the white and pial surface are > entering in the left lateral ventricle as displayed in figure 1 (session 1 > of the subject; cross-sectional), while the aseg is fine (this area is > considered as Lateral ventricle, see figure 2 attached). > What correction could I apply for this case ? > > 2/ For some subjects, there is a small shift between the pial of the two > sessions (or the white; see figure 3=display of the norm of my norm and > pial/white for the two timepoints (long)) and/or some weird/non straight > lines for pial or white (see figure 3, especially between temporal pole and > the rest of the brain). What could be the error in this case? Could it be > related to some bad quality of T1w images? > > 1) FreeSurfer version: freesurfer-linux-centos7_x86_64-7.1.0.tar.gz > 2) Platform: Ubuntu 18 (Virtual Machine on remote server) > 3) uname -a: Linux ubuntu18-cbrain-042020 4.15.0-135-generic #139-Ubuntu > SMP Mon Jan 18 17:38:24 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux > > Any help would be appreciated. > > Best, > Malo >
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