volume_similarity
Calculate volume similarity metrics for binary label volumes.
volume_similarity [options] <ground_truth.mnc> <test.mnc>
DESCRIPTION
volume_similarity calculates overlap-based similarity metrics between two binary label volumes, typically a ground truth segmentation and an automated segmentation result. The tool computes Cohen’s kappa, sensitivity (true positive rate), specificity (true negative rate), and Jaccard index.
The method is based on Feuerman and Miller (2008) for kappa computation.
OPTIONS
--kappa- Report Cohen’s kappa coefficient.
--sensitivity- Report sensitivity (true positive rate).
--specificity- Report specificity (true negative rate).
--jaccard- Report the Jaccard index (intersection over union).
--verbose- Print all available similarity metrics.
--csv- Output results in CSV format.
EXAMPLES
Compute all similarity metrics:
volume_similarity --verbose ground_truth.mnc test_seg.mnc
Compute kappa in CSV format:
volume_similarity --kappa --csv ground_truth.mnc test_seg.mnc
Compute Jaccard and sensitivity:
volume_similarity --jaccard --sensitivity ground_truth.mnc test_seg.mnc
AUTHOR
Vladimir S. Fonov - McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University.
COPYRIGHTS
Copyright © 2011 by Vladimir S. Fonov