External Email - Use Caution Thank you very much, Tim. Any idea for the 1st question?
Thanks and best wishes, Lizhi On Sat, 13 Jul 2019 at 09:18, Tim Schäfer <ts...@rcmd.org> wrote: > External Email - Use Caution > > Dear Lizhi, > > on your 2nd question: a rough explanation is on the FS Wiki at [1], but I > found this website [2] easier to follow as it has some example images. > > Regarding space, I think they are all in native space. You can run > `mri_info` on them to get detailed information. > > [1] https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllOutputFiles > [2] > http://www.grahamwideman.com/gw/brain/fs/fsunderstanding/fssampleimages.htm > > Best, > > Tim > > > On July 12, 2019 at 9:30 PM Zhi Li <lizhi.ps...@gmail.com> wrote: > > > > > > External Email - Use Caution > > > > Dear Freesurfer experts, > > > > Now I have an annotation file in fsaverage space and a MNI voxel > coordinate > > of one subject. May I ask how could I know if this coordinate is in one > > parcel of the annotation file? There are many coordinates that I cannot > > check it one by one in Freeview. In addition, if this is a native image > > coordinate how could I check whether it is in a parcel then? > > > > An additional question is whether the spaces of all the files in folder > > "mri" generated by recon-all are native individual space? What do the > files > > 'orig.mgz', norm.mgz'', 'brainmask.mgz', 'brain.mgz' and 'T1.mgz' refer > to? > > They are very similar to each other, with skull-stripped or not. Is there > > any document on it I could reference? > > > > Looking forward to your kind suggestions, > > > > Many thanks and best regards, > > > > Lizhi > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > Dr. Tim Schäfer > Postdoc Computational Neuroimaging > Department of Child and Adolescent Psychiatry, Psychosomatics and > Psychotherapy > University Hospital Frankfurt, Goethe University Frankfurt am Main, Germany > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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