yes, it was optimized for the mp-rages that Randy B used to collect there, not for example ADNI. On Tue, 25 Aug 2009, Michael Harms wrote:
> > I assume that that flag (-washu_mprage) is somewhat antiquated, right? > That is, it was included for an older set of scans (generated at WashU > generated years ago before Siemens had its own MPRAGE sequence) that > happened to have darker gray matter, and doesn't need to be applied for > "modern" MPRAGE scans, correct? > > -MH > > On Tue, 2009-08-25 at 13:33 -0400, Nick Schmansky wrote: >> Alex, >> >> The -washu_mprage flag affects mri_normalize and mri_segment. It >> adjusts the parameters of those binaries to match the assumed intensity >> profile in mprage scans, eg. to account for darker grey matter. I've >> updated the help text in recon-all. >> >> Nick >> >> >>> As a side note, there appears to be a switch for recon-all: >>> -washu_mprage : assume scan parameters are Wash.U. MP-RAGE protocol >>> yet there is no documentation as to what this determines, nor whether >>> the raw, or locally atlas-aligned data should be provided. (Avi didn't >>> know either...) >>> >>> Many Thanks! >>> >>> -Alex Li Cohen >>> ~)----------------- >>> >>> ---------------------------------------------------------------------- >>> Alexander Li Cohen >>> al...@npg.wustl.edu (WORK Email) >>> alexco...@gmail.com (Non-secure / rapid-response Email) >>> Petersen/Schlaggar Lab >>> Medical Scientist Training Program >>> Washington University in St. Louis School of Medicine >>> ---------------------------------------------------------------------- >>> >>> This message is intended only for the exclusive use of the intended >>> recipient(s) named herein and may contain information that is >>> PRIVILEGED and/or >>> CONFIDENTIAL. If you are not the intended recipient, you are hereby >>> notified >>> that any use, dissemination, disclosure or copying of this >>> communication is >>> strictly prohibited. If you have received this communication in >>> error, please >>> destroy all copies of this message and its attachments and notify us >>> immediately. >>> >>> The materials in this message are private and may contain Protected >>> Healthcare Information or other information of a sensitive nature. If >>> you are not the intended recipient, be advised that any unauthorized >>> use, disclosure, copying or the taking of any action in reliance on >>> the contents of this information is strictly prohibited. If you have >>> received this email in error, please immediately notify the sender via >>> telephone or return mail. >>> >>> _______________________________________________ >>> 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 > > _______________________________________________ > 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
