[Elastix] The determinant of the spatial Jacobian
F.Berendsen at lumc.nl
F.Berendsen at lumc.nl
Tue Apr 28 13:31:33 CEST 2015
Dear Tiantian,
You can see the transform in two different directions:
- to transform coordinates from the fixed image to the moving image (i.e. a displacement field)
- to use it to warp the moving image to the fixed image
The Jacobian determinant is >1 if displacement field is locally divergent, but form a warping point of view, the moving image is compressed.
A Jacobian determinant between 0 and 1 placement field is locally convergent, the warped moving image is expanded.
A Jacobian determinant smaller than 0 means folding of the deformation field, the warped moving image is locally 'turned inside-out'. Generally you would see parts of the moving image being repeated (all be it inside-out).
Considering your last question.
Elastix does not take the Jacobian determinant into account for warping images. So, locally stretching an image does not result in a lower intensity.
If you would want to transform an image where the intensities represent some sort of densities, for which a 'preservation of mass' needs to apply, you would need to do the post processing with the Jacobian determinant image yourself.
I hope this answers your questions,
Best,
Floris
From: elastix-bounces at bigr.nl [mailto:elastix-bounces at bigr.nl] On Behalf Of litiantian
Sent: zondag 26 april 2015 18:57
To: elastix at bigr.nl
Subject: [Elastix] The determinant of the spatial Jacobian
Dear all,
i have a question when i do the registration.....
when I use the command:
transformix -jac all -out outputDirectory -tp TransformParameters.txt
to calculate the determinant of the spatial Jacobian matrix, but i found that it contains minus values in the matrix.
through the elastix manual, i learned that the value of the determinant of the spatial Jacobian matrix identified the amount of local compression or expansion. If it was >1, the pixel was compressed,vise versa. but how does the minus value mean?
in my application, i want to do the registration of the organ position and shape,but keep the value of the corresponding pixel unchanged....(i don't know if this description is clearly to you... )
And if there is any possible method to do the registration and keep the 3D distribution information at the same time?
I would be appreciate if i can get any help from you!
Thank you very much!!
Tiantian
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