NAME¶
WarpTensorImageMultiTransform - part of ANTS registration suite
DESCRIPTION¶
WarpImageMultiTransform ImageDimension moving_image output_image [-R
reference_image |
--tightest-bounding-box] (
--reslice-by-header)
[--use-NN (use Nearest Neighbor Interpolator)][--ANTS-prefix prefix-name |
--ANTS-prefix-invert prefix-name] {[deformation_field | [-i]
affine_transform_txt |
--Id | [-i]
--moving-image-header /
-mh | [-i]
--reference-image-header /
-rh]} Example:
Reslice the image: WarpImageMultiTransform 3 Imov.nii Iout.nii
--tightest-bounding-box --reslice-by-header Reslice the image to
a reference image: WarpImageMultiTransform 3 Imov.nii Iout.nii
-R
Iref.nii
--tightest-bounding-box --reslice-by-header Note:
-i will use the inversion of the following affine transform.
--tightest-bounding-box will be overrided by
-R reference_image
if given. It computes the tightest bounding box using all the affine
transformations.
--Id uses the identity transform.
--moving-image-header or
-mh in short will use the orientation
header of the moving image file. This is typically not used with
--reslice-by-header.
--reference-image-header or
-rh in
short will use the orientation header of the fixed image file. This is
typically not used with
--reslice-by-header.
--reslice-by-header
uses the orientation matrix and origin encoded in the image file header. It
can be used together with
-R. This is typically not used together with
any other transforms.
--reslice-by-header is equvalient to
-i
-mh, or
-fh -i -mh if used together with
-R.
For ANTS users: To use with the deformation field and the affine transform files
generated from ANTS:
--ANTS-prefix prefix-name
--ANTS-prefix-invert prefix-name Example: 3 moving_image output_image
-R reference_image
--ANTS-prefix abcd.nii.gz Applies
abcdWarpxvec.nii.gz/abcdWarpyvec.nii.gz/abcdWarpzvec.nii.gz and then
abcdAffine.txt. Use this with ANTS to get the moving_image warped into the
reference_image domain. 3 reference_image output_image
-R moving_image
--ANTS-prefix-invert abcd.nii.gz
--ANTS-invert Applies the
inversion of abcdAffine.txt and then
abcdInverseWarpxvec.nii.gz/abcdInverseWarpyvec.nii.gz/abcdInverseWarpzvec.nii.gz.
Use this with ANTS to get the reference_image warped into the moving_image
domain. Note: prefix name "abcd" without any extension will use
".nii.gz" by default