dircos_to_xfm

convert direction cosines to an .xfm transformation file

dircos_to_xfm <input> <output> [options]

DESCRIPTION

dircos_to_xfm extracts the direction cosines and start coordinates from a MINC image file and writes a corresponding MINC .xfm linear transformation file. The resulting transformation maps from the canonical (world) coordinate system to the voxel-aligned coordinate system defined by the input image’s direction cosines.

This is useful when a MINC volume has non-standard direction cosines (e.g., oblique acquisitions) and you need a transformation that captures the orientation for use with other tools such as mincresample or itk_resample. The extracted .xfm can also be composed with other transformations using xfmconcat.

OPTIONS

--verbose

Print verbose information during processing.

--clobber

Overwrite the output file if it already exists.

EXAMPLES

Extract direction cosines from an oblique MRI scan:

dircos_to_xfm oblique.mnc orientation.xfm

Overwrite an existing output file:

dircos_to_xfm input.mnc output.xfm --clobber --verbose

AUTHOR

Vladimir S. Fonov - Montreal Neurological Institute, McGill University.

COPYRIGHTS

Copyright (C) Vladimir S. Fonov, McConnell Brain Imaging Centre, McGill University.

SEE ALSO

itk_convert_xfm, mincinfo, mincresample, xfmconcat, xfminvert