Benchmarking of two bioinformatic workflows for the analysis of whole-genome sequenced Staphylococcus aureus collected from patients with suspected sepsis

Table 2 Analyses used during the benchmarking

Analyses compared during the benchmarking	Reference method Phenotypic results	Bioinformatic workflows Genotypic predicted results
Analyses compared during the benchmarking	Reference method Phenotypic results	1928	INH
Species identification	MALDI-TOF MS	kmer-based method^b	JSpeciesWS
Antibiotic susceptibility test	Disc diffusion	kmer-based method^b	ResFinder
Virulence genes	nd^a	kmer-based method^b	VirulenceFinder
Sequence type	nd^a	kmer-based method^b	MLST

^anot determined, ^bthe underling method used is proprietary, the exact method cannot be mentioned, INH: in-house pipeline

ISSN: 1471-2334