Re: [Freesurfer] How would one run N4 bias corrected T1 and T2 images through FreeSurfer v6.0 REPOST

2018-02-21 Thread Falk Lüsebrink
-Ursprüngliche Nachricht- Von: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] Im Auftrag von Bruce Fischl Gesendet: Dienstag, 20. Februar 2018 17:17 An: Freesurfer support list Betreff: Re: [Freesurfer] How would one run N4 bias corrected T1 and T2

Re: [Freesurfer] How would one run N4 bias corrected T1 and T2 images through FreeSurfer v6.0 REPOST

2018-02-20 Thread Bruce Fischl
Hi Eric the easiest thing would be to give your n4-corrected image to recon-all and let it run n3 on it. N3 is pretty gentle so I would think this would be fine. The alternative would be harder I think cheers Bruce On Tue, 20 Feb 2018, Axelson, Eric D wrote:   We are using N4 to

[Freesurfer] How would one run N4 bias corrected T1 and T2 images through FreeSurfer v6.0 REPOST

2018-02-20 Thread Axelson, Eric D
We are using N4 to correct some large inhomogeneities in some samples and wanted to insert these images into the v6.0 pipeline and bypass the N3 bias correction done within. What would be the correct sequence of freesurfer commands to achieve this? Thanks Eric