[Mristudio-users] How to do a Tailarach transformation?

[susumu]

Hi Christian,

Sorry that the manuals for Landmarker and RoiEditor are still quite behind. 
This year, we will most likely provide 2-day tutorial in Hawaii ISMRM (Sat
and Sun). Announcement will be sent next week. Join one of these tutorials
is the best way at this point. We are working on manuals and hopefully can
provide "Getting Started" soon.

As for your question, there are several points I want to make;
1) There are three ways to do normalization: manual landmark-based (rigid,
affine, and LDDMM), automated linear & low-order non-linear (AIR), and
automated high-order non-linear (LDDMM).
2) Usually, automated AIR (rigid or affine) + automated LDDMM is the easiest
way.
3) Talairach brain is VERY different from normal subjects. To accurately
transform your data to Talairach, AIR is not enough. You need extensive
landmarking or AIR+LDDMM.
4) Manual landmark-based normalization has a great flexibility but it's time
consuming and require some experience.

I recommend you to start with #2. If you don't come to ISMRM, please wait
for the Getting Started or you are welcome to visit my lab.

Susumu

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-----Original Message-----
From: mristudio-users-bounces at mristudio.org
[mailto:mristudio-users-bounces at mristudio.org] On Behalf Of Christian Bieck
Sent: Monday, March 09, 2009 3:10 PM
To: mristudio-users at mristudio.org
Subject: [Mristudio-users] How to do a Tailarach transformation?

Hello,

I'm still working on analyzing the optic radiation via DTI and would like to
transform the subjects' data into Talairach space via Landmarker so as to
then position the relevant ROIs in a more objective manner. I am still
unsure about the whole process, though.
I watched all five videos of the DTIStudio tutorial which Landmarker was
only a small part of and then tried to follow the Landmarker manual, but I
still don't know how to proceed exactly. The best I could come up with is to
use Landmarks on the AC, PC and most superior, inferior, anterior,
posterior, left and right parts of the Talairach DWI template brain and the
individual subject's DWI data, which resulted in a slightly rotated
transformed brain, however, and didn't look quite right to me.
Now my main question is if I am somehow on the right path or if I forgot
some vital steps in all of this. In the case of using a Landmark-based
transformation, would it be a problem if, for example, the most anterior
part of the template brain and hence the Landmark would be on the right
hemisphere while the subject's most anterior part would be on the left
hemisphere?
Should I include an AIR transformation before that?
As you can see, I'm somewhat lost in all of this and so would very much
appreciate any input you could give me on how to do a proper Talairach
transformation via Landmarker. 
Thank you very much for your time and effort.

Sincerely,
Christian Bieck

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