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staphopia / staphopia-sccmec

A standalone version of Staphopia's SCCmec typing method.
MIT License
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Multiple SCCmec subtypes called #11

Open Kiratrea opened 11 months ago

Kiratrea commented 11 months ago

Hi I have a subset of isolates that were assigned two different subtypes (Ia/IIa). If this is a trustworthy result, is this indicating these samples have dual SCCmec types or could it mean some sort of hybridization?

As always thanks so much for providing these tools!

rpetit3 commented 11 months ago

Hi @Kiratrea

Thank you for the kind words! Honestly, I doubt they have multiple SCCmec types. I think for these samples it would be worth looking into actual coverage against reference SCCmec Ia and IIa cassettes.

I've been meaning to revisit this tool and develop some way to easily add new cassettes, but here is a list of references:

https://github.com/staphopia/staphopia-sccmec/issues/4#issuecomment-1050524944

Let me know if I can help in anyway