table of contents
reorient(1) | The Computational Morphometry Toolkit | reorient(1) |
NAME¶
reorient - Reorientation
SYNOPSIS¶
reorient [options] new-orientation infile outfile
DESCRIPTION¶
Convert between image orientations, i.e., physically re-order pixel array and adapt stored anatomical orientation information
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.
- --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).
Main Options¶
- --input-orientation <string>, -i <string>
- Override input orientation. This is a three-letter code, e.g., 'RAS', 'LPI', etc. [Default: NONE]
- --output-orientation <string>, -o <string>
- Override output orientation. Default is 'RAS', or the closest match supported by the output image file format [Default: NONE]
- --output-space <string>
- Override output coordinate space (e.g., 'RAS', 'LAS', 'LPS'). This does not affect the array order. Default is to write image in the input image space. [Default: NONE]
AUTHORS¶
Torsten Rohlfing, with contributions from Michael P. Hasak, Greg Jefferis, Calvin R. Maurer, Daniel B. Russakoff, and Yaroslav Halchenko
LICENSE¶
BUGS¶
Report bugs at http://nitrc.org/projects/cmtk/
ACKNOWLEDGMENTS¶
CMTK is developed with support from the NIAAA under Grant AA021697, National Consortium on Alcohol and Neurodevelopment in Adolescence (N-CANDA): Data Integration Component. From April 2009 through September 2011, CMTK development and maintenance was supported by the NIBIB under Grant EB008381.
Jul 7 2024 | CMTK 3.3.1p2 |