Preliminary steps to run the Type Multiple Species workflow
Before starting the workflow,
- Download microbial genomes using either the Download or Set Up Microbial Reference Database tools or the Download Pathogen Reference Database tool (see the Working with databases chapter).
- Download the MLST schemes using the Download MLST Schemes tool (see the Downloading schemes section).
- Download the Database for the Find Resistance with ResFinder tool using the Download of Database for ResFinder 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).
Your navigation area should now look similar to the figure 12.16.
Figure 12.16: Overview of the Navigation area after downloading the databases and schemes necessary to run the workflows.