Table 2.

Genotyping accuracy and rate of SVJedi-graph and state of the art genotyping tools on the deletions and insertions of the High confidence HG002 SV set with the 30× CLR PacBio read dataset.

	Global		Deletions		Insertions
Tool	Accuracy (%)	Rate (%)	Accuracy (%)	Rate (%)	Accuracy (%)	Rate (%)
SVJedi-graph	94.6	99.0	95.4	99.9	94.1	98.3
cuteSV	88.7	100	90.8	100	87.1	100
LRcaller	83.6	100	89.3	100	79.3	100
Sniffles2	85.4	99.5	87.9	99.9	83.6	99.1
SVJedi	92.2	90.2	91.7	85.8	92.5	93.6