uniformize_minc.pl

resample a MINC volume to a uniform axis-aligned grid

uniformize_minc.pl <input.mnc> <output.mnc> [options]

DESCRIPTION

uniformize_minc.pl resamples a MINC volume onto a uniform, axis-aligned (orthogonal) voxel grid. This is useful for volumes acquired with oblique slice orientations or non-isotropic voxel spacing, converting them to a standard sampling where the voxel axes are aligned with the world coordinate axes at a uniform step size.

The script wraps mincresample with options to set the output voxel step size, interpolation method, and output data type. An optional spatial transformation can be applied during resampling.

OPTIONS

--verbose

Print progress information during processing.

--clobber

Overwrite existing output files.

--step <f>

Isotropic voxel step size in millimetres for the output grid. Default: 1.0.

--resample <type>

Interpolation method to use for resampling. Accepted values include trilinear, tricubic, and nearest_neighbour. Default: tricubic.

--transform <xfm>

Apply the specified XFM transformation during resampling.

--datatype <type>

Output voxel data type (e.g. byte, short, float, double).

--invert_transform

Invert the transformation before applying it.

EXAMPLES

Resample a volume to 1 mm isotropic with default tricubic interpolation:

uniformize_minc.pl input.mnc output.mnc

Resample to 0.5 mm isotropic with trilinear interpolation:

uniformize_minc.pl input.mnc output.mnc --step 0.5 --resample trilinear

Resample with a transformation applied:

uniformize_minc.pl input.mnc output.mnc \
    --transform to_standard.xfm --datatype short --clobber

AUTHOR

Vladimir S. Fonov. McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.

COPYRIGHTS

Copyright (C) Vladimir S. Fonov and McGill University. Licensed under the terms of the GNU General Public License version 3 or later.

SEE ALSO

mincresample(1)