TABLE 1.

Percentage of isolates in which BTyper correctly identified the presence/absence of eight virulence genes, MLST, rpoB AT, and panC clade

Data set	Virulence gene (%)a								MLST ST (%)b	rpoB AT (%)c	panC clade (%)d
	hblA	hblC	hblD	nheA	nheB	nheC	cytK	entFM
Training (n = 22)
Assemblies	100	100	100	100	95.5	100	90.9	95.5	100	100	100
PE readse	100	90.9	100	90.9	95.5	95.5	90.9	95.5	100	100	100
Validation (n = 24)
Assemblies	91.7	100	95.8	87.5	95.8	100	100	91.7	95.8	100	100
PE reads	91.7	100	91.7	87.5	95.8	100	100	91.7	95.8	100	100
Total (n = 46)
Assemblies	95.7	100	97.8	93.5	95.7	100	95.7	93.5	97.8	100	100
PE readse	95.7	95.7	95.7	89.1	95.7	97.8	95.7	93.5	97.8	100	100

^aPresence/absence of eight virulence genes from previously published WGS data (training set) or PCR (validation set).

^bMultilocus sequence typing (MLST) results from previously published WGS data (training set) or Sanger sequencing (validation set).

^crpoB allelic typing (AT) results from previously published WGS data (training set) or Sanger sequencing (validation set).

^dpanC clade typing results from previously published WGS data.

^eIllumina paired-end (PE) reads.