Hi! I have 16s full length metagenome sequences. I would do taxonomic classification using Kraken2. I want to calssify my sequences to species level. But, when I use all database in Kraken2, I only get few species. Do you have solution for my problem and what databse should I use to get species level using 16s full length metagenome?
Thankyou
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We just added the most comprehensive reference available – core_nt – to the Kraken2 tool at UseGalaxy.eu. You could try that one to see what happens! The details about what that database represents is in this topic.
More help for 16S sequencing analysis strategies can be found here.
- GTN Materials Search (query=16s)
Hopefully this helps! 
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