pipeline_jacobian.pl
compute Jacobian determinant from a nonlinear deformation grid
pipeline_jacobian.pl <grid.mnc> <output_jacobian.mnc>
DESCRIPTION
pipeline_jacobian.pl computes the Jacobian determinant map from a nonlinear deformation grid file. The Jacobian determinant at each voxel represents the local volume change induced by the nonlinear transformation: values greater than 1 indicate local expansion, values less than 1 indicate local contraction, and a value of exactly 1 indicates no volume change.
The input is a MINC deformation grid file (typically the grid component of a nonlinear transform produced by minctracc or nlfit_s), and the output is a scalar MINC volume containing the determinant values. This map is used in deformation-based morphometry (DBM) and for Jacobian modulation of tissue probability maps.
OPTIONS
--verbose- Print progress information during processing.
--clobber- Overwrite the output file if it already exists.
EXAMPLES
Compute the Jacobian determinant from a nonlinear grid:
pipeline_jacobian.pl nl_grid.mnc jacobian.mnc
Compute with verbose output and overwrite existing file:
pipeline_jacobian.pl nl_grid.mnc jacobian.mnc --verbose --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.