External Email - Use Caution Hi Anastasia,
thank you for your rapid response. Since I do not have the T1 of my subjects, I have not run the recon-all. Instead of that, I have copy-pasted the "mri" folder (including the aparc+aseg.mgz file) located in $FREESURFER_HOME/freesurfer/subjects/bert/mri into each subject's folder ($ SUBJECTS_DIR/$subjectid/) so TRACULA can find all the files from Freesurfer that are needed in trac-all prep step. Thanks a lot again, Ainara El vie., 11 ene. 2019 a las 14:49, Yendiki, Anastasia (< ayend...@mgh.harvard.edu>) escribió: > Hi Ainara - What do you mean by default freesurfer files? Can you describe > how you created each subject's recon-all style directory under > SUBJECTS_DIR? TRACULA looks for $SUBJECTS_DIR/$subjectid/mri/aparc+aseg.mgz > for each subject ID. > > a.y > > > On Jan 11, 2019 8:30 AM, Ainara Gomez <ainara.ggastias...@deusto.es> > wrote: > > External Email - Use Caution > > Dear Freesurfer experts, > > I am trying to run TRACULA as a complementary analysis on a patients and > healthy controls sample. I have read in the tutorial that it is assumed > that FreeSurfer has already been run on all the subjects' T1-weighted data > because TRACULA will use the aparc+aseg.mgz from each subject's FreeSurfer > reconstruction. However, T1s of my subjects are not available for this > study and I only have the diffusion images. > > I have run the three steps of the trac-all separately (using the default > freesurfer files: aseg+aparc.mgz...) and all the processes have ended > without errors. > > Is this correct? Is it possible to use the default freesurfer files > instead of each subject's recon-all files in order to run trac-all? > > Thank you very much in advance, > > Ainara > > -- > Ainara Gómez Gastiasoro > > Dpt of Methods and Experimental Psychology > Neuropsychology of Severe Medical Conditions research team > Faculty of Psychology and Education > University of Deusto > > neurolab.deusto.es > https://twitter.com/deustoneurolab > > Avda. de las Universidades 24, > 48007, Bilbao (Spain) > Phone: +34 944139000 (ext. 3268) > <%2B34%20944139000> > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Ainara Gómez Gastiasoro Dpt of Methods and Experimental Psychology Neuropsychology of Severe Medical Conditions research team Faculty of Psychology and Education University of Deusto neurolab.deusto.es https://twitter.com/deustoneurolab Avda. de las Universidades 24, 48007, Bilbao (Spain) Phone: +34 944139000 (ext. 3268) <%2B34%20944139000>
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