nu_correct_norm
perform combined non-uniformity correction and intensity normalization
nu_correct_norm [options] <input.mnc> <output.mnc>
DESCRIPTION
nu_correct_norm is a Perl script that performs combined N3 non-uniformity correction and intensity normalization in a single pipeline. It wraps nu_correct for bias field estimation and removal, then applies intensity normalization to standardize the output values.
This combined approach is more efficient than running nu_correct and intensity normalization as separate steps, and ensures that the non-uniformity correction and normalization are applied consistently.
The script is commonly used as a preprocessing step before tissue classification or other quantitative analyses that require both uniform intensity and standardized intensity ranges.
OPTIONS
-verbose- Print progress information during processing.
-clobber- Overwrite the output file if it already exists.
-mask <file>- Specify a brain mask to restrict the region used for bias field and intensity estimation.
-model <file>- Specify the intensity model file to use as the normalization reference.
EXAMPLES
Correct and normalize a T1-weighted volume:
nu_correct_norm t1_raw.mnc t1_corrected.mnc
Correct and normalize with a brain mask:
nu_correct_norm -mask brain_mask.mnc t1_raw.mnc t1_corrected.mnc
Correct and normalize with a specific model and verbose output:
nu_correct_norm -verbose -clobber -model /opt/models/icbm_t1.mnc t1_raw.mnc t1_corrected.mnc
AUTHOR
Andrew Janke - McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.
COPYRIGHTS
Copyright © 2000 by Andrew Janke