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Thanks for your efforts to make it work in python. I have a practical question. If your package allows users to save the parameters used in the previous registration, then use it in the next step. Let me give an instance as follows:
I have three files (fixed image, moving image, and a region mask in moving image). I want to firstly register moving image to fixed image, then the mask to fixed image using the same parameters. Then I will have a pair of registered images, and also a correct mask. Is it possible in your package? it is the same as described in DeedsBCV:
Run deformable deeds
We will use the affine matrix "affine_2_4_matrix.txt" to initialise the deformable registration. The output filenames are generated using the base "nonlinear_2_4".
Note that the input images are the same as before, but we can optionally pass the segmentation of the moving image with -S. We will therefore obtain two transformed scans nonlinear_2_4_deformed.nii.gz (the CT scan) and nonlinear_2_4_deformed_seg.nii.gz (the warped segmentation). The displacements are stored (for all control points) in _displacements.dat:
./deedsBCV -F img2_res.nii.gz -M img4_res.nii.gz -O nonlinear_2_4 -A affine_2_4_matrix.txt -S seg4_res.nii.gz
Looking forward to your reply.
The text was updated successfully, but these errors were encountered:
Good morning,
that is a fairly common scenario, but as it was not needed for the experiments we were conducting it was not implemented. But we heavy appreciate any kind of contribution.
Hi, developers
Thanks for your efforts to make it work in python. I have a practical question. If your package allows users to save the parameters used in the previous registration, then use it in the next step. Let me give an instance as follows:
I have three files (fixed image, moving image, and a region mask in moving image). I want to firstly register moving image to fixed image, then the mask to fixed image using the same parameters. Then I will have a pair of registered images, and also a correct mask. Is it possible in your package? it is the same as described in DeedsBCV:
We will use the affine matrix "affine_2_4_matrix.txt" to initialise the deformable registration. The output filenames are generated using the base "nonlinear_2_4".
Note that the input images are the same as before, but we can optionally pass the segmentation of the moving image with -S. We will therefore obtain two transformed scans nonlinear_2_4_deformed.nii.gz (the CT scan) and nonlinear_2_4_deformed_seg.nii.gz (the warped segmentation). The displacements are stored (for all control points) in _displacements.dat:
./deedsBCV -F img2_res.nii.gz -M img4_res.nii.gz -O nonlinear_2_4 -A affine_2_4_matrix.txt -S seg4_res.nii.gz
Looking forward to your reply.
The text was updated successfully, but these errors were encountered: