Add database: SerotypeFinder about abricate

[tseemann]

@dutchscientist no you can't just give it to me, i need a URL or systematic way to download it etc.

I think this must be it:
https://bitbucket.org/genomicepidemiology/serotypefinder_db/src

[dutchscientist]

"@dutchscientist do you have the URL for the amplicon sequences?"

Which amplicon sequences?

[tseemann]

@dutchscientist for Serotype finder? The website has no database to download?

[dutchscientist]

Ah. I did manage to download it, just need to find the link back. I can upload the database I made for it?

[tseemann]

Actually, i already have the SRST2 cleaned version of this database as --db ecoh.
Is that what you want?
ie. fliC and wxzetc?

[dutchscientist]

Yes, that's the link! Well done, I found it before and forgot to bookmark it...

The EcOH and serotypefinder databases are very similar, but not identical. Am not enough of an E. coli expert to have a preference, some people may prefer the one, some the other?

[tseemann]

I think these are the same thing, and the SRST2 one is more up to date,

[andersgs]

I would trust the SRST2 one. It has been curated by Danielle Ingle. That is what we use at MDU.