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

[susumu]

Once you get the confirmation email, you should receive the results.
It usually takes about 2-6 hours depending on the length of the queue.

If you don't receive the results within 24 hours, please let us know, by
sending an email to xli at jhmi.edu with the identifier number. 

We will have substantial increase in our computational resource this year. I
hope this will open up the throughput a lot.

-----Original Message-----
From: mristudio-users-bounces at mristudio.org
[mailto:mristudio-users-bounces at mristudio.org] On Behalf Of Christian Bieck
Sent: Wednesday, April 01, 2009 6:08 AM
To: mristudio-users at mristudio.org
Subject: Re: [Mristudio-users] How to do a Tailarach transformation?

Hello,

I made an attempt at 2) and did a rigid AIR transformation, followed by an
LDDMM. As the grey scale images have to be in byte format, I transformed
both the JHU_MNI_GA_DWI sample image and one of my test subject's DWI file
to byte format via the BFW button.
I then went on to do an automated single channel LDDMM, not changing the
default parameters, and after a while Landmarker said that the files had
been sent.
Now while I typed in my registered email address, I didn't get a
confirmation nor a Process Complete email, so I'm wondering how long such a
remote LDDMM processing normally takes or if I made some mistake during the
whole process.
Are there any vital details during LDDMM that I may have overlooked?
Any input would be greatly appreciated. Thanks for your time.

Sincerely,
Christian Bieck  

> 
> 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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