Regarding the -mprage tag, we read in the recon-all help that:

-mprage : assume scan parameters are MGH MP-RAGE protocol
-washu_mprage : assume scan parameters are Wash.U. MP-RAGE protocol.
                 both mprage flags affect mri_normalize and mri_segment,
                   and assumes a darker gm

Would you recommend using -mprage for any MP-RAGE or just if you use the same protocol by Andre (that appears in the fs wiki and his website) ?

We are using a standard MP-RAGE sequence (not multiecho) with very similar parameters to the ones recommended by Andre, but not exactly the same.

Many thanks!,
Gari





On Thu, Mar 7, 2013 at 1:54 AM, Nick Schmansky <nicks@nmr.mgh.harvard.edu> wrote:
Josh,

The new -3T flag affects the nu correction stage, and specifies a 3T-based
target for the talairach alignment, and the existing -mprage flag affects
mri_normalize and mri_segment, so you can use both.

Nick


> The new Freesurfer has an optional flag to adjust NU intensity correction
> parameters for images acquired on 3T scanners. There exists also a  flag
> for MPRage sequences.
>
> I use 3T MPRages. What is the recommended use in this case?
>
> Thanks
> Josh
> _______________________________________________
> 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


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.