WarpTimeSeriesImageMultiTransform1

Overview

Usage 1 (Forward warp): WarpTimeSeriesImageMultiTransform ImageDimension <moving_image.ext> <output_image.ext> -R <fixed_image.ext> <MyWarp.ext> <MyAffine.txt> [interpolation]

Usage 2 (Inverse warp): WarpTimeSeriesImageMultiTransform ImageDimension <fixed_image.ext> <output_image.ext> -R <moving_image.ext> -i <MyAffine.txt> <MyInverseWarp.ext> [interpolation]

Usage Information

ImageDimension

: 3 or 4 (required argument).

<moving_image.ext>

: The image to apply the transformation to. The moving_image will be either a 3-D image with vector voxels or a 4D image with scalar voxels.

<output_image.ext>

: The resulting image. Output will be of the same type as input, but will be resampled to the domain size defined by the -R image.

<MyWarp.ext> <MyAffine.txt>

: Mappings can be stringed together, e.g.: MyAffine.txt MySecondAffine.txt MyWarp.nii.gz MySecondWarp.nii.gz -i MyInverseAffine.txt

Options

-i

: Will use the inversion of the following affine transform.

-R

: Reference image space that you wish to warp into.

--reslice-by-header

: Equivalient to -i -mh, or -fh -i -mh if used together with -R. It uses the orientation matrix and origin encoded in the image file header.

--tightest-bounding-box

: Computes the tightest bounding box using all the affine transformations. It will be overridden by -R <reference_image.ext> if given.

These options can be used together with -R and are typically not used together with any other transforms.