pipeline_qc_t2t1.pl
generate QC image for T1/T2 co-registration overlay
pipeline_qc_t2t1.pl <t1> <t2> <candID> <visit> <age> <output.jpg>
DESCRIPTION
pipeline_qc_t2t1.pl generates a quality control image showing the co-registration between T1-weighted and T2-weighted volumes. The two modalities are overlaid using a colour scheme that makes misalignment clearly visible, allowing rapid visual assessment of registration quality.
The output image is annotated with candidate ID, visit label, and age for identification during batch QC review. Good co-registration will show anatomical structures in proper alignment across both modalities, while poor registration will show colour fringing at tissue boundaries.
OPTIONS
--verbose- Print progress information during processing.
--fake- Generate a placeholder QC image without performing actual rendering.
--clobber- Overwrite the output file if it already exists.
EXAMPLES
Generate a T1/T2 co-registration QC image:
pipeline_qc_t2t1.pl t1_tal.mnc t2_tal.mnc CAND001 V1 25 qc_t2t1.jpg
Generate with verbose output:
pipeline_qc_t2t1.pl t1_tal.mnc t2_tal.mnc CAND001 V1 25 qc_t2t1.jpg \
--verbose
Generate a placeholder image:
pipeline_qc_t2t1.pl t1_tal.mnc t2_tal.mnc CAND001 V1 25 qc_t2t1.jpg \
--fake
AUTHOR
Vladimir S. Fonov - McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.
COPYRIGHTS
Copyright © McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.