LMAS Test Dataset - ZymoBIOMICS Microbial Community Standards

The eight bacterial genomes and four plasmids of the ZymoBIOMICS Microbial Community Standards were used as reference. It contains tripled complete sequences for the following species:

Bacillus subtilis

Enterococcus faecalis

Escherichia coli

Escherichia coli plasmid

Lactobacillus fermentum

Listeria monocytogenes

Pseudomonas aeruginosa

Salmonella enterica

Staphylococcus aureus

Staphylococcus aureus plasmid 1

Staphylococcus aureus plasmid 2

Staphylococcus aureus plasmid 3

It also downloads the raw sequence data of the mock communities, with an even and logarithmic distribution of species:

ERR2984773 - Evenly distributed real sample

ERR2935805 - Log distributed real sample

A set of simulated samples were generated from the genomes in the ZymoBIOMICS standard though the InSilicoSeq sequence simulator (version 1.5.2), including both even and logarithmic distribution, with and without Illumina error model. The number of read pairs generated matches the number of read pairs in the real data for each distribution. The following samples are available in Zenodo:

ENN - Evenly distributed sample with no error model

EMS - Evenly distributed sample with Illumina MiSeq error model

LNN - Log distributed sample with no error model

LHS - Log distributed sample with Illumina HiSeq error model

DOI Dataset