Table 2.

Performance of the trained model for s-indel and m-indel prediction

	Indel*	TPR	FPR	Fβ	Hand-Till
somatic	s	0.887	0.005	0.789	0.971
	m	0.953	0.032	0.873	0.985
germline	s	0.932	0.004	0.92	0.979
	m	0.925	0.005	0.956	0.989
artifact	s	0.994	0.021	0.997	0.991
	m	0.978	0.007	0.984	0.995

Note: TPR (sensitivity): true positive rate; FPR ($1-\mathrm{specificity}$): false positive rate; ${\mathrm{F}}_{\mathrm{\beta }}$: generalized $\mathrm{F}$-score. $\mathrm{\beta }$ = 15 for somatic, 1 otherwise. Hand-Till: Hand-Till’s measure, a generalization of AUC to multi-class problem (Section 6). *s for single-nucleotide indel, m for multi-nucleotide indel.