Add Sequences to MLST Schemes
MLST schemes can be created from scratch, downloaded from a database or extended by adding individual sequences to the alleles in the scheme:
Toolbox | Microbial Genomics Module (
) | Typing and Epidemiology (beta) (
) | NGS-MLST (
) | MLST Schemes (
) | Add Sequences to MLST Scheme (
)
This will bring up a dialog as shown in figure 13.6, where it is possible to select the scheme you would like to add gene(s) to. Click Next.
Figure 13.6: Define a scheme to add sequences to.
In the next step(s) (there are as many wizard windows as gene(s) in the scheme), it is possible to assign sequences to each gene successively (see figure 13.7).
Figure 13.7: Adding a sequence to gene arcC.
Specify a location to save the scheme(s). We recommend to use a folder for saving all the databases and MLST schemes necessary to run the CLC Microbial Genomics Module tools. Click Finish.
The sequences added in this way cannot be combined to an allelic profile and a sequence type, and will thus only contribute to expanding the number of allelic types.