full genome shotgun sequencing
screen for presence of MLST genes or self-defined reference gene sequences
screen for presence of MLST genes or self-defined reference gene sequences
screen for antibiotic resistance genes or MLST genes (local assembly based approach)
screening of contigs for antimicrobial resistance or virulence genes
full genome shotgun sequencing
screen for new strains of a species (E. coli) and identify the strain specific gene set