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PROGRAM:

NAME


make_initial_affine - Initialize affine transformation

SYNOPSIS


make_initial_affine ReferenceImage FloatingImage OutputXform

DESCRIPTION


Compute initial affine transformation by aligning centers of mass or principal axes

OPTIONS


Global Toolkit Options (these are shared by all CMTK tools)
--help
Write list of basic command line options to standard output.

--help-all
Write complete list of basic and advanced command line options to standard output.

--wiki
Write list of command line options to standard output in MediaWiki markup.

--man
Write man page source in 'nroff' markup to standard output.

--xml
Write command line syntax specification in XML markup (for Slicer integration).

--version
Write toolkit version to standard output.

--echo
Write the current command line to standard output.

--verbose-level <integer>
Set verbosity level.

--verbose, -v
Increment verbosity level by 1 (deprecated; supported for backward compatibility).

--threads <integer>
Set maximum number of parallel threads (for POSIX threads and OpenMP).

Transformation construction control
--mode
Mode selection for initialization Supported values: "direction-vectors", "centers-of-
mass", "principal-axes", "identity", where the default is "direction-vectors", or use
one of the following:

--direction-vectors
Alignment based on image direction vectors [This is the default]

--centers-of-mass
Alignment based on centers of mass (translation only)

--principal-axes
Alignment based on principal axes

--identity
Create only an identity transformation

--center-xform, -C
Set transformation center (for rotation, scale) to center of reference image.

--native-space
Write transformation between the native image spaces, rather than in CMTK standard
RAS space. This is the default when running this tool as a Slicer plugin.

Image/Transformation Database
--db <string>
Path to image/transformation database that should be updated with the newly
transformation from reference to floating image. [Default: NONE]

AUTHORS


Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R.
Maurer, Daniel B. Russakoff, and Yaroslav Halchenko

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