pipeline_qc_nl.pl
generate QC images for nonlinear classification and lobe segmentation
pipeline_qc_nl.pl <t1w> <lc_clean> <nl_lobes> <candID> <visit> <age> <out_lc> <out_nl>
DESCRIPTION
pipeline_qc_nl.pl generates quality control images for reviewing the results of nonlinear tissue classification and lobe segmentation. It produces two output images: one showing the cleaned tissue classification overlaid on the T1-weighted volume, and another showing the lobe segmentation labels.
These QC images are essential for verifying that the classification and segmentation pipelines have produced anatomically correct results. The images are annotated with the candidate ID, visit label, and age for identification during batch QC review.
OPTIONS
--verbose- Print progress information during processing.
--fake- Generate placeholder QC images without performing actual rendering.
--clobber- Overwrite output files if they already exist.
EXAMPLES
Generate classification and lobe segmentation QC images:
pipeline_qc_nl.pl t1_tal.mnc cls_clean.mnc lobes.mnc \
CAND001 V1 25 qc_cls.jpg qc_lobes.jpg
Generate with verbose output:
pipeline_qc_nl.pl t1_tal.mnc cls_clean.mnc lobes.mnc \
CAND001 V1 25 qc_cls.jpg qc_lobes.jpg --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.