Before starting the workflow,
- Download microbial genomes using either the Download Custom Microbial Reference Databasetool, the prokaryotic databases from the Download Curated Microbial Reference Database tool or the Download Pathogen Reference Database tool (see the Working with databases chapter). Databases can also be created using the Create Annotated Sequence List.
- Download the MLST schemes using the Download Large MLST Schemes tool (see the Downloading schemes section).
- Download the database for the Find Resistance with Nucleotide DB tool using the Download Resistance Database tool (see the Download Resistance Database section).
- Create a New Result Metadata table using the Create Result Metadata Table tool (see the Create Result Metadata Table section).
When you are ready to start the workflows, your navigation area should look similar to the figure 10.24 with one MLST scheme and one reference genome.