bacterial complexes

[theanita1]

Has anyone run an interpretation using complexes rather than specific species?
For example, the AGAR report in Australia it's reported K. pneumoniae complex rather than K. pneumoniae, K. pnuemoniae pneumoniae, K. variicola as individual bacteria. Same goes for A. baumanii complex and _E. cloacae.

Am currently working around this by making a secondary organism variable where I've renamed the various isolates into their respective complexes, but just thought I'd ask if anyone else is using complexes.

Cheers

[msberends]

Great question. Just reading up on AGAR (https://agargroup.org.au), what an AWESOME initiative.

Do you know any literature where the complexes are well-defined? We could add them to the package, but with complexes (and groups) it's hard to find a reliable source of info. For 2.0, we just added all the ~1,500 serotypes of Salmonella, but it would be great to also have some complexes (K. pneumoniae, C. freundii, etc.).