pipeline_talnoscale.pl
remove scaling from Talairach transform and resample
pipeline_talnoscale.pl <input.mnc> <input.xfm> <output.xfm> <output.mnc> [options]
DESCRIPTION
pipeline_talnoscale.pl creates a Talairach-like transform with the scaling component removed. The standard Talairach transform includes a scaling factor that normalizes brain size, but for certain analyses (such as volumetric measurements in native space or deformation-based morphometry) it is desirable to have a rigid-body alignment without the scaling.
The script decomposes the input Talairach transform, removes the scale parameters, recomposes the transform, and resamples the input volume using the no-scale transform. This produces a volume aligned to Talairach orientation but preserving the original brain size.
OPTIONS
--verbose- Print progress information during processing.
--clobber- Overwrite output files if they already exist.
--model_dir <dir>- Path to the directory containing the reference model files used to define the output sampling grid.
--model_name <name>- Base name of the reference model.
EXAMPLES
Remove scaling from a Talairach transform:
pipeline_talnoscale.pl input.mnc tal.xfm noscale.xfm noscale.mnc \
--model_dir /opt/minc/share/icbm152_model_09c \
--model_name icbm_avg_152
Remove scaling with clobber:
pipeline_talnoscale.pl input.mnc tal.xfm noscale.xfm noscale.mnc \
--model_dir /opt/minc/share/icbm152_model_09c \
--model_name icbm_avg_152 --clobber
AUTHOR
Vladimir S. Fonov - McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.
COPYRIGHTS
Copyright © McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.