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.\" DO NOT MODIFY THIS FILE! It was generated by help2man 1.49.3.
.TH TRANSFORMIX "1" "January 2025" "transformix version: 5.2.0" "User Commands"
.SH NAME
transformix \- manual page for transformix version: 5.2.0
.SH DESCRIPTION
transformix version: 5.2.0
.PP
transformix applies a transform on an input image and/or generates a deformation field.
The transform is specified in the transform\-parameter file.
.HP
\fB\-\-help\fR, \fB\-h\fR displays this message and exit
.TP
\fB\-\-version\fR
output version information and exit
.SS "Call transformix from the command line with mandatory arguments:"
.TP
\fB\-out\fR
output directory
.TP
\fB\-tp\fR
transform\-parameter file, only 1
.SS "Optional extra commands:"
.TP
\fB\-in\fR
input image to deform
.TP
\fB\-def\fR
file containing input\-image points; the point are transformed
according to the specified transform\-parameter file
use "\-def all" to transform all points from the input\-image, which
effectively generates a deformation field.
.TP
\fB\-jac\fR
use "\-jac all" to generate an image with the determinant of the
spatial Jacobian
.TP
\fB\-jacmat\fR
use "\-jacmat all" to generate an image with the spatial Jacobian
matrix at each voxel
.HP
\fB\-loglevel\fR set the log level to "off", "error", "warning", or "info" (default),
.HP
\fB\-priority\fR set the process priority to high, abovenormal, normal (default),
.IP
belownormal, or idle (Windows only option)
.TP
\fB\-threads\fR
set the maximum number of threads of transformix
.PP
At least one of the options "\-in", "\-def", "\-jac", or "\-jacmat" should be given.
.PP
The transform\-parameter file must contain all the information necessary for transformix to run properly. That includes which transform to use, with which parameters, etc. For a usable transform\-parameter file, run elastix, and inspect the output file "TransformParameters.0.txt".
.SS "Need further help? Please check:"
.IP
* the elastix website: https://elastix.dev
* the source code repository site: https://github.com/SuperElastix/elastix
* the discussion forum: https://groups.google.com/g/elastix\-imageregistration
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