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 on PET
> > 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 you pet
> > 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 to coregistered
> > 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
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> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
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