Hi Paul
I guess you could use CVS for this.
cheers
Bruce
On Sat, 14 Oct 2017, miracle ozzoude
wrote:
Hello Bruce,
Thank you very much. Can I still general cortical and subcortical maps with the
Spherical warp of r/lh.white surface? If yes, please what are the steps to
achieve this? can I still analyze it with mri_glm?
Best,
Paul
Sent from my BlackBerry 10 smartphone.
Original Message
From: Bruce Fischl
Sent: Saturday, October 14, 2017 11:27 AM
To: Freesurfer support list
Reply To: Freesurfer support list
Subject: Re: [Freesurfer] cortical/subcortical volume based analysis
Hi Paul
if you use a property (like gm) to drive intersubject registration it then
becomes difficult to also analyze it. If your warp was truly perfect you
could just analyze the properties of the warp, but even then it is hard to
localize effects (e.g. if you changed the smoothness of the warp field
would the effect move somewhere else?). If the warp is not perfect then
some of the effect is in your warp and some in the residual anatomical
differences. There are lots of caveats like this you have to worry about.
It's the reason we drive our spherical warp with the ?h.white surface. It
is invariant to gm atrophy and so can be used to assess it without worrying
about this kind of thing
cheers
Bruce
On Fri, 13 Oct 2017, miracle ozzoude wrote:
Hello Bruce,
Thank you for the response. I meant the latter ( making maps etc). I want to do
something similar to the subcortical volume based analysis on PETSurfer page
however, on freesurfer T1. Freesurfer doesn't perform VBM hence, why should
there be a problem with interpretation?
Best,
Miracle
Sent from my BlackBerry 10 smartphone.
Original Message
From: Bruce Fischl
Sent: Friday, October 13, 2017 6:53 PM
To: Freesurfer support list
Reply To: Freesurfer support list
Subject: Re: [Freesurfer] cortical/subcortical volume based analysis
Hi Paul
we typically do this type of analysis by looking at scatter plots of
structure volumes (e.g. hippocampus). Alternatively, you can make maps,
but that opens up all the problems/difficulties of interpretation of VBM.
Which did you mean?
cheers
Bruce
On Fri, 13 Oct 2017, miracle ozzoude wrote:
Hello FreeSurfer experts,
I want to perform a whole brain volume based group analysis for cortical and
subcortical regions.
That's something very similar to surface based group analysis for cortical
thickness however, for
volume. Is there a tutorial on how to do it? if yes, please can i get the link.
If not, please can
someone direct me how to go about doing it? My goal is to perform a group
comparison between control
and PD patients based on volume. Thank you very much.
Best,
Paul
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