External Email - Use Caution Thank you! And glad to hear it’s in the works for the newest version.
Best, Daniel On Tue, Jul 30, 2019 at 12:50 PM Yendiki, Anastasia < ayend...@mgh.harvard.edu> wrote: > Hi Daniel - It'll be easier to just preprocess the data before passing > them to trac-all. Topup will be incorporated to the preprocessing for the > next version release. Of course you can replace that part of the script > yourself if you prefer - you'll have to also combine the AP and PA outputs > etc etc. > > Best, > a.y > ------------------------------ > *From:* freesurfer-boun...@nmr.mgh.harvard.edu < > freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Daniel Callow < > ddcc2...@gmail.com> > *Sent:* Tuesday, July 30, 2019 8:44:32 AM > *To:* Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Subject:* [Freesurfer] TRACULA incorporate topup instead of field map? > > > External Email - Use Caution > > Hello, > > I have previously used field map correction for b0 inhomogeneities when > running TRACULA, however my new data set has A>P and P>A encoding. I know > that topup has been shown to perform slightly better than filed map > correction. I wonder if it would be possible to manually edit the > ($dob0) then # B0-inhomogeneity "correction" > part of the code and run topup instead of epidewarp.fsl? I am trying to > determine how feasible this is and was wondering if this had been tried by > others? > > If not, does it make more sense to process the data with topup separately > and then incorporate it into TRACULA? > > Thank you for any guidance you can provide, > *Daniel Callow* > *PhD Student, Neuroscience and Cognitive Science* > Exercise for Brain Health Lab > University of Maryland, College Park > *ddcc2...@gmail.com <ddcc2...@gmail.com>* > 443-254-6298 > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- *Daniel Callow* *PhD Student, Neuroscience and Cognitive Science* Exercise for Brain Health Lab University of Maryland, College Park *ddcc2...@gmail.com <ddcc2...@gmail.com>* 443-254-6298
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