warpinit
Synopsis
Create an initial warp image, representing an identity transformation
Usage
warpinit [ options ] template warp
template: the input template image.
warp: the output warp image.
Description
This is useful to obtain the warp fields from other normalisation applications, by applying the transformation of interest to the warp field generated by this command.
The image generated is a 4D image with the same spatial characteristics as the input template image. It contains 3 volumes, with each voxel containing its own x,y,z coordinates.
Example usages
Create three separate NIfTI images, for each of X,Y,Z components:
$ warpinit template.mif warp-'[]'.nii
By utilising the MRtrix multi-file numbering syntax, the command can natively produce three separate images, which may be useful to create images suitable for use in some registration software
Options
Standard options
-info display information messages.
-quiet do not display information messages or progress status; alternatively, this can be achieved by setting the MRTRIX_QUIET environment variable to a non-empty string.
-debug display debugging messages.
-force force overwrite of output files (caution: using the same file as input and output might cause unexpected behaviour).
-nthreads number use this number of threads in multi-threaded applications (set to 0 to disable multi-threading).
-config key value (multiple uses permitted) temporarily set the value of an MRtrix config file entry.
-help display this information page and exit.
-version display version information and exit.
References
Tournier, J.-D.; Smith, R. E.; Raffelt, D.; Tabbara, R.; Dhollander, T.; Pietsch, M.; Christiaens, D.; Jeurissen, B.; Yeh, C.-H. & Connelly, A. MRtrix3: A fast, flexible and open software framework for medical image processing and visualisation. NeuroImage, 2019, 202, 116137
Author: J-Donald Tournier (jdtournier@gmail.com)
Copyright: Copyright (c) 2008-2024 the MRtrix3 contributors.
This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
Covered Software is provided under this License on an “as is” basis, without warranty of any kind, either expressed, implied, or statutory, including, without limitation, warranties that the Covered Software is free of defects, merchantable, fit for a particular purpose or non-infringing. See the Mozilla Public License v. 2.0 for more details.
For more details, see http://www.mrtrix.org/.