[Mristudio-users] More AIR

[Wang, Sumei]

Hi Dear all,

I have some questions about the normalization of fiber tracts. First I generated the fibers using DTIstudio.  Then I normalized b0, FA and ADC maps to the template using Landmarker. I saved the transformation matrix  and applied it to the generated fibers. However the normalized fibers I got is very thin. It is quite different from the original one. Is this correct? Can anybody help?

Thanks

Sumei

-----Original Message-----
From: mristudio-users-bounces at mristudio.org
[mailto:mristudio-users-bounces at mristudio.org]On Behalf Of Copeland,
Sarah A.
Sent: Saturday, November 01, 2008 4:28 PM
To: DTI Studio, ROI Editor, Landmarker Questions/Support
Subject: Re: [Mristudio-users] More AIR


Hi -

Thanks for the quick response! I saw this posting from Susumu on 5/16/08:

You can use functions available in Landmarker to do this type of resampling.
Also, make sure that the center and angles of the images are the same.
Otherwise, even if the matrix dimensions are all adjusted, brain locations
are not the same. You can read the center and orientation information from
DICOM files and type in these numbers to Landmarker "translation" and
"rotation" operation. Otherwise, you can use "AIR" to do rigid alignment
between MPRAGE and DTI (you can use b0 or DWI). AIR can adjust matrix
dimensions and brain locations all at once. So, this could be an easier way.

Which made it sound as though this kind of registration is possible. Is this no longer true? Or is this still a possibility?

Thanks again -

Sarah Copeland
________________________________________
From: mristudio-users-bounces at mristudio.org [mristudio-users-bounces at mristudio.org] On Behalf Of Jun Yi Wang [junyiwang2002 at yahoo.com]
Sent: Friday, October 31, 2008 1:08 PM
To: DTI Studio, ROI Editor, Landmarker Questions/Support
Subject: Re: [Mristudio-users] More AIR

Hi Sarah,

The AIR in DTI studio is used for coregistering different volumes in the same DTI scan.  These volumes have the same image resolutions.  You need to use SPM or FSL for coregister images with different image resolutions and FOVs.

Jun Yi Wang

________________________________
From: "Copeland, Sarah A." <SCopeland at mednet.ucla.edu>
To: "mristudio-users at mristudio.org" <mristudio-users at mristudio.org>
Sent: Friday, October 31, 2008 2:34:58 PM
Subject: [Mristudio-users] More AIR

Hello all –

I would like to be able to register my anatomic scan to the mean b0 of my DTIs so  that I can draw ROIs on the anatomic scan. However, when I push the “AIR” button, it allows me to enter mean of b0s as the one to register to, but it does not recognize the analyze format or raw format anatomic images in the same folder. The only files that show up in the list are the raw data files, or the files created when doing the tensor calculations (FA, etc). I am working in DTI studio (not landmarker or ROI editor). I don’t want to normalize, just coregister anatomic and DTI scans from the same subject. Is there a way to do this?

Thanks very much,

Sarah Copeland

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