Hi,
well - there is no way to apply a transformation without reslicing the image you want to apply the transform to. Not even in SPM;) I guess what they do is to display the image in reference space but native resolution. To do that take the A2B.mat from the previous command and do:
flirt [options] -in image_A -ref image_A -applyxfm -init A2B.mat -out image_A_inBspace
You can view the result in FSLView.
Cheers-
Andreas
________________________________
Von: FSL - FMRIB's Software Library im Auftrag von Buyean Lee
Gesendet: Mo 02.03.2009 00:09
An: [log in to unmask]
Betreff: Re: [FSL] AW: [FSL] Flirt question
Hi Andreas,
I need to spatially normalize the coregistered image A.
Therefore, I think the reference image should be a template (e.g., MNI152_T1_1mm.nii).
In fact, I can normalized the coregistered image_A using the resliced image_A (e.g, r_image_A).
I just want to know if I can normalize the image_A (which is coregistered to image_B) without using the resliced image_A.
Thank you,
Buyean
-----Original Message-----
From: Andreas Bartsch <[log in to unmask]>
To: [log in to unmask]
Sent: Sun, 1 Mar 2009 10:46 am
Subject: [FSL] AW: [FSL] Flirt question
Hi,
just do
flirt -in image_A -ref image_B -omat A2B.mat
and change whatever defaults you want to adjust opr whatever additional options
you may want to use (type the "flirt" command in the terminal to get the usage).
Cheers-
Andreas
________________________________
Von: FSL - FMRIB's Software Library im Auftrag von Buyean Lee
Gesendet: So 01.03.2009 17:20
An: [log in to unmask]
Betreff: [FSL] Flirt question
Dear FSL users,
In SPM5, I can find a transformation matrix for spatial normalization of an
image_A coregistered to an image_B without reslicing the image_A.
Would someone please let me know how to do the same operation with Flirt?
I have very limited experience in FSL (I don't know what search word would be
the best for this question).
Thank you,
Buyean
________________________________
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