[Mristudio-users] Hi,

[susumu]

Hi Priti,

There is a related thread called, "fiber tracking after updating in
Landmarker". Please refer it first.

I don't recommend to transform vector images, because vector transformation
has inherent instability. If you want to have fiber orientations to be
transformed (unlike other scalar image transformation), you have to
transform a tensor map which consists of 6xd1xd2xd3, where d1-3 are matrix
dimensions. To load a tensor map to Landmarker, you have to use dedicated
button, "open .d" so that Landmarker knows that it has to perform special
transformation. My another thread explains how to load the transformed
tensor map and recalculate a vector map.

Please let me know if you have any question.

Susumu 

-----Original Message-----
From: mristudio-users-bounces at mristudio.org
[mailto:mristudio-users-bounces at mristudio.org] On Behalf Of Priti Srinivasan
Sent: Wednesday, April 09, 2008 4:40 PM
To: mristudio-users at mristudio.org
Subject: [Mristudio-users] Hi,

Hi, 

My images were in the Analyze format and I was trying to import it as raw
file, thats why it was turning out to be weird. As per Susumu's advice I
warped my images to the MNI template using linear registration. I had
another question here. 

I warped my mdw, b0 and fa images in ANALYZE format to the MNI space. I
would like to do fiber tracking for the subjects in the MNI space, but I am
not sure as to how to warp the vector images to the MNI template. I usually
use the .fa and .vec file that CATNAP spits out to create the color FA maps
and then do the fiber tracking on that. Since these are vectors/tensor
images I am not sure how the impact of warping will be on the image. What is
the best way to convert these vector images to the standard space? Thanks
for you time and patience. 

Sincerely,
Priti,

The value of image slices are automatically calculated out based on the size
of the image file, the image width, the image height and the image data
format. That's why it is always grayed out.

Please check if the image data format is set to be the right one. 


Xin



----- Original Message -----
From: Priti Srinivasan <Srinivasan at kennedykrieger.org>
Date: Friday, April 4, 2008 1:56 pm
Subject: [Mristudio-users] Loading a subject onto Landmarker
To: mristudio-users at mristudio.org


> Hi All,
>  
>  I have a very basic question. I am having problems loading a subject 
> onto landmarker. I loaded the ICBM_MNI_DWI of the landmarker. The 
> subject that i am supposed to load into the landmarker for 
> registration/normalization should have the dimensions 181x217x181. I 
> am able to set the first two dimensions, but the third dimension 
> (Image slice is always greyed out.). That value is by default 108 in 
> this case and I am not able to change it. If I do not change it I can 
> only see white lines and grey lines and not the brain (which I assume 
> is because the image matrix is not correct). Any suggestions on how 
> the Image slices parameter can be changed?
>  
>  Thanks in advance,
>  
>  Priti
>  
>  
>  
>  
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