Yes, the T2 is only used to refine the pial surface On 11/26/2019 5:14 PM, Billah, Tashrif wrote: Hi all,
Is -T2 used only in -autorecon3 as shown here<https://surfer.nmr.mgh.harvard.edu/fswiki/recon-all#Other>: recon-all -subject subjectname -T2 /path/to/T2_volume -T2pial -autorecon3 In other words, if I do: recon-all -subject subjectname -i /path/to/input_volume -T2 /path/to/T2_volume -T2pial -all Will only -autorecon3 make use of the provided -T2 and not -autorecon1 or -autorecon2? I think the answers are yes because -T2 appears under -autorecon3 only in ReconAllDevTable<https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllDevTable>. Best, Tashrif ------------------------------------------------------------- Tashrif Billah, MS Research Engineer Brigham and Women's Hospital Harvard Medical School tbil...@bwh.harvard.edu<mailto:tbil...@bwh.harvard.edu> http://pnl.bwh.harvard.edu/tashrif-billah-m-s/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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