Preliminary steps to run the "Type Multiple Species" workflow
Before starting the workflow,
- Download the NCBI microbial genomes using the Download Bacterial Genomes from NCBI tool (see the Download Bacterial Genomes from NCBI). Note that this is a very large file and that its download can take up to several hours.
- Download the MLST schemes using the Download MLST Schemes tool (see the Downloading schemes section).
- Download the Database for the Find Resistance tool using the Download of Database for Find Resistance tool (see the Download Database for Find Resistance 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 7.20.
Figure 7.20: Overview of the Navigation area after downloading the databases and schemes necessary to run the workflows.