Table 1.

Comparison of AVA and VIP performance (1 sample, 67 amplicons, 12 known variants)

	AVA software	VIP pipeline
Total variants (unfiltered)	235	50
'Pass filter' variants	33	14
True variants called	6/12 (50%)	12/12 (100%)
False positives	27/33 (81.2%)	2/14 (14.2%)
False negatives	6/12 (50%)	0/12 (0%)