Do you have any scan that was acquired at the same time that is whole head? Any scan will do. If so, you can run register-sess using the -bbr-int option (or bbregister directly). Eg, if the anatomical was acquired at the same time, then, to use register-sess, create a folder in the session folder called anatomical/001 and put the anatomical in there (eg, anat.nii.gz), then use -bbr-int anatomical anat
On 11/26/2018 02:58 PM, Francesca Strappini wrote: > > External Email - Use Caution > > Dear freesurfer experts, > > I am using freesurfer to analyze some fMRI data collected on two > monkeys. My runs have a partial field of view, since just the > posterior part of the brain was scanned. Unfortunately, no full-head > EPI was collected. The registration between the processed functional > data and the T1 is bad. All the values in the register.dof6.mincost > file are above 0.8 and also visually I can see some mismatch. I though > to run bbregister, could you suggest me which is the best procedure > and which steps of the preprocessing I should re-run after? > > Thanks > > -- > Francesca Strappini, Ph.D. > Neurobiology Department > Weizmann Institute of Science > 234 Herzl Street, Rehovot 7610001 Israel > Tel.: +972 58 444 2584 > E-mail: francesca.strapp...@weizmann.ac.il > <mailto:francesca.strapp...@weizmann.ac.il> > > > _______________________________________________ > 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
