Type a Known Species
The Type a Known Species workflow is designed for typing of samples representing a single known species (figure 10.23). It identifies the associated MLST, determines variants found when mapping the sample data against the user specified reference, and finds occurring resistance genes if they match genes within the user specified resistance database.
Figure 10.23: Overview of the template Type a Known Species workflow.
Subsections
- Preliminary steps to run the Type a Known Species workflow
- How to run the Type a Known Species workflow
- Example of results obtained using the Type a Known Species workflow