Table 1. Classification (TP, FP, FN) and performance (p, r, F) results with repetitions.

Four cavity detection methods are benchmarked against the ground-truth: Fpocket, GaussianFinder, GHECOM, and KVfinder.

Method	APOs						HOLOs						APOs + HOLOs
	TP	FP	FN	p	r	F	TP	FP	FN	p	r	F	p	r	F
Fpocket	16722	1480	3644	0.92	0.82	0.86	50027	5722	8699	0.90	0.85	0.87	0.90	0.84	0.87
GaussianFinder	16441	2443	1251	0.87	0.93	0.90	45011	7939	2964	0.85	0.94	0.89	0.86	0.94	0.89
GHECOM	11875	5946	5307	0.67	0.69	0.68	33962	19566	13917	0.63	0.71	0.67	0.64	0.70	0.67
KVFinder	8074	1378	7590	0.85	0.52	0.64	23385	3643	19885	0.87	0.54	0.67	0.86	0.53	0.66

Abbreviations:

APOs: apo proteins; HOLOs: holo proteins.

TP: true positives; FP: false positives; FN: false negatives.

p: precision; r: recall; F: F-score.