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I'm in need of a species-level 16S database. I had relied on the rdp database on other analysis platforms (e.g. FROGS) but the pre-built kraken2 rdp database only goes to genus-level.
I built a database from the RefSeq database but it is missing many key taxa (e.g. candidatus Omnitrophus).
Does anyone know of a species-level 16S database for kraken2 that is broader than RefSeg? e.g. a species-level Silva or RDP?
Many thanks
The text was updated successfully, but these errors were encountered:
Many thanks for your reply. Unfortunately, no - this doesn't help. The Kraken2 RDP and Silva databases are limited to genus level, while GreenGenes has not been updated since - I think - 2016.
Hi all,
I'm in need of a species-level 16S database. I had relied on the rdp database on other analysis platforms (e.g. FROGS) but the pre-built kraken2 rdp database only goes to genus-level.
I built a database from the RefSeq database but it is missing many key taxa (e.g. candidatus Omnitrophus).
Does anyone know of a species-level 16S database for kraken2 that is broader than RefSeg? e.g. a species-level Silva or RDP?
Many thanks
The text was updated successfully, but these errors were encountered: