Dear Freesurfer's experts,
I come back to you concerning questions of registrations.
Since during the longitudinal process each --long subject directory has been registered onto the common --base template, shouldn't I:
1) Register PET data onto the subject cross-sectional directory (native data) with rigid-body transformation 2) Then take into account the registration between --cross and --long directory subject and apply the registration to the PET first registered onto native space ? In this case, how and where is this transformation has been saved ?
Best regards, Matthieu
2016-09-30 23:05 GMT+02:00 Douglas N Greve greve@nmr.mgh.harvard.edu:
Yes
On 09/30/2016 05:05 PM, Matthieu Vanhoutte wrote:
Hi Douglas,
Does the surface of the closest MRI time point mean the surface of the -long subject time point directory rather than cross-sectional subject time point directory ?
Best regards, Matthieu
Le 30 sept. 2016 9:14 PM, "Douglas N Greve" <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> a écrit :
There is no such long process for PET. The idea is that you process the MRI in a longitudinal way, then sample the PET data onto the surface of the closest MRI time point. Then proceed in a way similar to the thickness analysis On 09/29/2016 11:08 AM, Matthieu Vanhoutte wrote: > Dear Freesurfer's experts, > > Could you answer me about my last question with no response in the > mail below ? > > When using cortical thickness in longitudinal analysis with LME, we > used lh.thickness or rh.thickness from -long subject directories. > These data followed particular processing steps including > registrations in order to use them with more precision in longitudinal > studies, didn't they ? > > My problem is that I would like to perform longitudinal study onPET
> data images with LME. So I wonder if I just have to resample onto > -long cortical subject surface ? Do I need to follow the same steps > than cortical thickness from cross-sectional to -long subject > directories ? If this is the case, which commands should I use to > mimic cortical thickness longitudinal data ? > > Many thanks in advance for helping ! > > Best regards, > Matthieu > > 2016-09-18 23:02 GMT+02:00 Matthieu Vanhoutte > <matthieuvanhoutte@gmail.com <mailto:matthieuvanhoutte@gmail.com> <mailto:matthieuvanhoutte@gmail.com <mailto:matthieuvanhoutte@gmail.com>>>: > > Hi Martin, > > Thanks for your answer. However, it seems to me that cortical > thickness follow a particular process with the recon-all -long > process, isn’t it ? Is there any resample onto average time > subject then other operation following ? > > Best regards, > Matthieu > > > Le 18 sept. 2016 à 16:26, Martin Reuter > <mreuter@nmr.mgh.harvard.edu <mailto:mreuter@nmr.mgh.harvard.edu> <mailto:mreuter@nmr.mgh.harvard.edu <mailto:mreuter@nmr.mgh.harvard.edu>>> > a écrit : > > > > Hi Matthieu, > > > > I never used PET data, but once you manage to resample youpet
> data onto the surface, you will have a file similar to the > thickness file for each subjects. Instead of thickness it holds > you PET information. From that point on everything should be > identical to the thickness analysis. > > > > So this is really more a question how to get your PET data > sampled onto the surface. If no one else replies, write that into > the subject line and repost. > > > > Best, Martin > > > > > >> On Sep 17, 2016, at 7:37 AM, Matthieu Vanhoutte > <matthieuvanhoutte@gmail.com <mailto:matthieuvanhoutte@gmail.com> <mailto:matthieuvanhoutte@gmail.com <mailto:matthieuvanhoutte@gmail.com>>> > wrote: > >> > >> Dear Freesurfer’s experts, > >> > >> I would like to use the longitudinal mixed-effects model for > surface PET analysis. Although I could find all the process to > follow the longitudinal analysis of cortical thickness, I couldn’t > resolve the steps/commands to apply successively tocoregistered
> PET data on T1 MRI. > >> > >> Could you precise me the process and commands to use for PET > longitudinal analysis ? > >> > >> Many thanks in advance ! > >> > >> Best regards, > >> Matthieu > >> _______________________________________________ > >> Freesurfer mailing list > >> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>> > >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>> > >> > >> > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>> > > > > > > The information in this e-mail is intended only for theperson
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