Mykrobe-tools/mykrobe

link to Hawkey 2020 publication on S sonnei panel?

kapsakcj opened this issue · 5 comments

kapsakcj commented

The Mykrobe wiki lists "Hawkey 2020" as the basis for the Shigella sonnei genotyping panel implemented in mykrobe. Could you provide a link to the publication?

I found this via google scholar, but I'm wondering if there is another publication that goes more in-depth on the genotyping panel.

https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1008931

I'm curious to learn more about the lineage nomenclature for S sonnei to help make sense of the Mykrobe outputs.

Thanks!

kapsakcj commented

After a little bit more digging, I think I found the publication: https://www.nature.com/articles/s41467-021-22700-4

Still I think it would be helpful to link to the publication somewhere in the Mykrobe wiki.

Might also be useful to link to https://github.com/katholt/sonneityping as is done with Typhi & genotyphi

iqbal-lab commented

OMG @kapsakcj , i thought i had replied , many apologies! Sonneityping is already linked on the wiki here
https://github.com/Mykrobe-tools/mykrobe/wiki/AMR-Prediction
We should indeed link to the actual paper, will reply here when done

iqbal-lab commented

ok to close this?

kapsakcj commented

Yes, thanks for adding those links and the citation, much appreciated!

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