Preliminary steps to run the Type a Known 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 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.
Figure 10.24: Overview of the Navigation area after creating the result metadata table and downloading the databases and MLST schemes necessary to run the workflows.