Table 2.

Performance comparisons in the simulation study.

(%)	Algorithm	Overall accuracy	Copy loss		Copy gain
			Recall	FPR	Recall	FPR
Single-sample analysis	CONY	99.21	99.44	0.70	97.85	0
	CNVnator	99.09	99.67	0.88	99.11	0.04
	FREEC	98.62	91.77	0.36	92.79	0.02
	rdxplorer	97.12	93.67	0.59	82.18	0.18
Paired-samples analysis	CONY	99.86	99.50	0.02	98.82	0.01
	CNVSeq	94.65	71.10	0.01	47.35	0.01
	FREEC	99.72	98.49	0.06	98.90	0.07