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fbreitwieser / krakenuniq

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
GNU General Public License v3.0
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Can I use databases build with Kraken2 #31

Open aldertzomer opened 5 years ago

aldertzomer commented 5 years ago

To use an existing database, does it have to be a kraken database or can I also use a kraken2 database? build_taxdb works, but krakenuniq generates the error: database ("./bacteria") does not contain necessary file database.kdb , the bacteria folder contains only k2d files.

potant commented 5 years ago

i have the same issue, kraken2 database seems not to have kdb files (kraken v1) that are necessary for the krakenuniq to run...

andersgs commented 5 years ago

From a conversation with the author, at the moment only Kraken1. Kraken2 may be supported in the future.

fbreitwieser commented 5 years ago

Hi @aldertzomer and @potant , @andersgs is correct. Currently we only support the Kraken v1 database format, as Kraken v2 databases are very different. We do hope to support it in the future, but this will take some time. I extended the README to address this question.

tseemann commented 5 years ago

@fbreitwieser any movement on supporting Kraken2 databases in KrakenUniq ?