Table 2. Classification (TP, FP, FN) and performance (p, r, F) results without 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	4697	4763	8291	0.50	0.36	0.42	13932	17522	20651	0.44	0.40	0.42	0.45	0.39	0.42
GaussianFinder	3774	4711	9214	0.44	0.29	0.35	9724	14793	24859	0.40	0.28	0.33	0.41	0.28	0.34
GHECOM	3629	8259	9359	0.31	0.28	0.29	10027	27233	24556	0.27	0.29	0.28	0.28	0.29	0.28
KVFinder	2608	2688	10380	0.49	0.20	0.29	7398	7985	27185	0.48	0.21	0.30	0.48	0.21	0.29

Abbreviations:

APOs: apo proteins; HOLOs: holo proteins.

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

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