pipeline_tal_mask.pl
apply brain mask to T1/T2/PD volumes in Talairach space
pipeline_tal_mask.pl <mask> <t1> <t2> <pd> <t1_out> <t2_out> <pd_out>
DESCRIPTION
pipeline_tal_mask.pl applies a brain mask to T1-weighted, T2-weighted, and proton-density volumes in Talairach stereotaxic space. Voxels outside the brain mask are set to zero, producing masked versions of each input volume.
This masking step is typically performed after stereotaxic registration and before tissue classification, to ensure that only brain tissue is included in subsequent processing steps. All three modalities are masked consistently using the same brain mask.
OPTIONS
--verbose- Print progress information during processing.
--clobber- Overwrite output files if they already exist.
EXAMPLES
Apply a brain mask to all three modalities:
pipeline_tal_mask.pl brain_mask.mnc t1_tal.mnc t2_tal.mnc pd_tal.mnc \
t1_masked.mnc t2_masked.mnc pd_masked.mnc
Apply with verbose output:
pipeline_tal_mask.pl brain_mask.mnc t1_tal.mnc t2_tal.mnc pd_tal.mnc \
t1_masked.mnc t2_masked.mnc pd_masked.mnc --verbose
AUTHOR
Vladimir S. Fonov - McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.
COPYRIGHTS
Copyright © McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.