nipype.interfaces.elastix.utils module¶
Generic interfaces to manipulate registration parameters files, including transform files (to configure warpings)
EditTransform¶
Bases: BaseInterface
Manipulates an existing transform file generated with elastix
Example
>>> from nipype.interfaces.elastix import EditTransform >>> tfm = EditTransform() >>> tfm.inputs.transform_file = 'TransformParameters.0.txt' >>> tfm.inputs.reference_image = 'fixed1.nii' >>> tfm.inputs.output_type = 'unsigned char' >>> tfm.run()
- Mandatory Inputs:
transform_file (a pathlike object or string representing an existing file) – Transform-parameter file, only 1.
- Optional Inputs:
interpolation (‘cubic’ or ‘linear’ or ‘nearest’) – Set a new interpolator for transformation. Maps to a command-line argument:
FinalBSplineInterpolationOrder
. (Nipype default value:cubic
)output_file (a pathlike object or string representing a file) – The filename for the resulting transform file.
output_format (‘nii.gz’ or ‘nii’ or ‘mhd’ or ‘hdr’ or ‘vtk’) – Set a new image format for resampled images. Maps to a command-line argument:
ResultImageFormat
.output_type (‘float’ or ‘unsigned char’ or ‘unsigned short’ or ‘short’ or ‘unsigned long’ or ‘long’ or ‘double’) – Set a new output pixel type for resampled images. Maps to a command-line argument:
ResultImagePixelType
.reference_image (a pathlike object or string representing an existing file) – Set a new reference image to change the target coordinate system.
- Outputs:
output_file (a pathlike object or string representing an existing file) – Output transform file.