Qiime2 compatible oceanic databases - PR2 and Phytoref

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Recently I was working on a project that requires tax assignment of oceanic samples using Bayesian classifier, but the main databases we used, PR2 and Phytoref, are not in the format compatible with Qiime2, so I just went ahead modified them and trained the classifier for Qiime2 use. If anyone also need to use these databases please feel free to download.

https://github.com/ndu-UCSD/Oceanic_database

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This is great, thanks so much for sharing Niu! Can you tell me which version of PR2 and Phytoref you used to make the artifacts?

Thanks!
Jesse

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@Du_Niu just wanted to send a reminder with you tagged to see if you could put up the version info for posterity. Thanks again for sharing these artifacts!

Jesse

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Hi,

I'm working on a project which requires me to use PhytoRef. Would any one be able to provide me any tips or advice on how to change a database to qiime compatible one ?

Any support is highly appreciated.

Thanks in advance!

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@uth,
Check out the link from @Du_Niu above — @Du_Niu has already converted Phytoref into QIIME 2-formatted files!

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@Nicholas_Bokulich Thank you so much for the response!

I need to know the Phytoref version converted by Du_Niu. I'm sorry I haven't worked with PhytoRef before. Are there different versions of PhytoRef, similar to other databases?

Many thanks!

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Pinging @Du_Niu — do you know the answer to this?