Linking De Novo Assembly Results with Long DNA Reads Using the dnaasm-link Application

Table 3

Comparison of the number of core genes reproduced from datasets depicted in Table 1.

		Complete and single-copy	Complete and duplicated	Fragmented	Missing
E. coli	NGS contigs	780	0	1	0
	SSPACE-LongRead	619	162	0	0
	LINKS	780	0	1	0
	dnaasm-link	780	0	1	0
	Fast-SG + OPERA-LG	780	0	1	0
	Fast-SG + BOSS	780	0	1	0
	Fast-SG + ScaffMatch	780	0	1	0
S. cerevisiae	NGS contigs	1657	9	18	27
	SSPACE-LongRead	1647	27	15	22
	LINKS	1661	9	14	27
	dnaasm-link	1659	10	14	28
	Fast-SG + OPERA-LG	1661	9	16	25
	Fast-SG + BOSS	1660	9	18	24
	Fast-SG + ScaffMatch	1658	9	12	32

The sets of reference core genes used for evaluation were enterobacteriales_odb9 (781 core genes) and saccharomycetales_odb9 (1712 core genes) for E. coli and S. cerevisiae, respectively.