Table 2 SV discovery accuracy on HG002

	DeBreak			Sniffles			pbsv			cuteSV			PAV
	Rec	Pre	F1	Rec	Pre	F1	Rec	Pre	F1	Rec	Pre	F1	Rec	Pre	F1
Deletion
CLR	97.73	96.48	97.10	95.14	96.69	95.91	95.28	96.21	95.74	97.31	94.18	95.72	–	–	–
HiFi	98.16	95.11	96.61	97.45	91.67	94.47	96.74	94.88	95.80	97.71	93.33	95.47	96.60	96.40	96.50
Nano	98.40	95.07	96.71	96.29	94.62	95.45	97.40	81.08	88.50	98.18	89.27	93.51	–	–	–
Insertion
CLR	97.15	93.36	95.22	88.38	89.58	88.98	93.22	83.43	88.05	95.40	81.67	88.00	–	–	–
HiFi	97.26	92.84	95.00	90.90	87.79	89.32	97.41	80.42	88.10	96.64	89.88	93.14	96.18	91.32	93.69
Nano	97.46	93.91	95.65	90.57	90.01	90.29	95.07	85.60	90.09	96.99	89.27	92.97	–	–	–

The unit for recall, precision, and F1 score is %. The highest recall, precision, and F1 score among four tested SV callers are marked in bold.
Rec Recall, Pre Precision, F1 F1 score, Nano Nanopore, – not applicable.

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