External Email - Use Caution Dear Doug,
please let me know if it is possible to run the recon-all to the fsaverage subject of my sample to obtain specific labels (from the aparc+aseg.mgz and the aparc.a2009s+aseg.mgz files) derived from my analysis sample. Many thanks in advance. Best, Jose El mar., 12 mar. 2019 a las 18:17, Laboratorio de Neurociencia Funcional (< neuroaging...@gmail.com>) escribió: > I just want to use some labels contained in the aparc+aseg.mgz and the > aparc.a2009s+aseg.mgz files to build an anatomical template that can be > used in VBM analysis. To my understanding, these labels should be obtained > from the entire sample since they will be used as the anatomical template > for VBM analysis. For that reason, I decided to run the recon-all to my > fsaverage subject and take the labels of interest. Is it the right way to > proceed? > > Thank you in advance. > > Best, > Jose > > El mar., 12 mar. 2019 a las 17:58, Greve, Douglas N.,Ph.D. (< > dgr...@mgh.harvard.edu>) escribió: > >> I'm still not sure what you are trying to do. If you are running vbm, >> you can usually get the T1 sampled in the MNI space for all subjects. >> You can average them together and run the average through recon-all >> >> On 3/12/19 11:44 AM, Laboratorio de Neurociencia Funcional wrote: >> > >> > External Email - Use Caution >> > >> > Hi Bruce, >> > >> > what I really need is to obtain several labels that are only included >> > in the aparc+aseg, not for each subject but for the entire sample. My >> > goal is to use these labels (ROIs) in VBM analysis after they are >> > trasformed to volume and further registered to MNI. To this aim, I >> > though to obtain first the fsaverage subject from my sample, run the >> > recon-all in that fsaverage, and finally obtain the labels of >> > interest. Is there another way to proceed with this? >> > >> > Thank you in advance. >> > >> > Best, >> > Jose >> > >> > El mar., 12 mar. 2019 a las 14:55, Bruce Fischl >> > (<fis...@nmr.mgh.harvard.edu <mailto:fis...@nmr.mgh.harvard.edu>>) >> > escribió: >> > >> > Hi Jose >> > >> > can you clarify what you mean by "...to get all the labels that are >> > obtained in each individual subject." You almost certainly don't >> > need to >> > recon fsaverage to do this, but I'm not sure exactly what you mean >> > >> > cheers >> > Bruce >> > >> > >> > On Tue, 12 >> > Mar 2019, Laboratorio de Neurociencia Funcional wrote: >> > >> > > >> > > External Email - Use Caution >> > > >> > > Dear Freesurfers, >> > > >> > > I would like to apply recon-all to the fsaverage subject of my >> > sample to get all the labels that are >> > > obtained in each individual subject. However, it is not possible >> > because my average subject doesn't >> > > contain the file /orig/001.mgz required to run the recon-all. >> > Could you help me to handle this >> > > issue? >> > > >> > > Many thanks in advance. >> > > >> > > Best regards, >> > > Jose >> > > >> > >_______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu <mailto: >> 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 >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >
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