Additional file 2 of In vitro and in silico parameters for precise cgMLST typing of Listeria monocytogenes

Additional file 2 Standardized matrices of the cgMLST workflows BIGSdb (n = 423), INNUENDO (n = 339), GENPAT (n = 423), SeqSphere (n = 423), BioNumericsAB (n = 423), BioNumericsAF (n = 423) and MentaLiST (n = 423) applied to downsampled paired-end reads from 3 reference genomes of Listeria monocytogenes (i.e. ATCC19114, ATCC19115 and ATCCBAA679). The terms ATCC19114, ATCC19115 and ATCCBAA679 from the field FILE correspond to cgMLST profiles of the corresponded circular de novo assemblies from ATCC company. The empty sets represent mismatches. Because of internal firewall, the INNUca assembler integrated into the cgMLST workflow INNUENDO cannot not perform assemblies of paired-end reads with read depth of coverage of 20X (n = 42) and 10X (n = 42). (TSV 12262 kb)