Fig. 4

Principals component analyses (PCAs) of the numerical parameters IAAR, IAAS, DEPTH and BREADTH (defined in the section abbreviations) according to the categorical parameters “reference genome” (A), “successive platings” (B), “DNA extraction replicate” (C), “sequencing replicate” (D), “targeted depth” (E), “ cgMLST workflows” (F) including BIGSdb (n = 420), INNUENDO (n = 336), GENPAT (n = 420), SeqSphere (n = 420), BioNumerics (n = 420) and MentaLiST (n = 420) applied to downsampled paired-end reads from 3 reference genomes of Listeria monocytogenes (i.e. ATCC19114, ATCC19115 and ATCCBAA679). The PCA outcomes from the workflows BIGSdb and SeqSphere are overlapped