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rrwick / Metagenomics-Index-Correction

GNU General Public License v3.0
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Missing annotations #1

Closed UriaMorP closed 5 years ago

UriaMorP commented 5 years ago

Hello there. I downloaded the pre-built NCBI_r88_Human17k index fro kraken2. After running 

kraken2 --db [path_to_NCBI_r88_Human17k] --output [kraken_output_path] --report [report_path] --use-names --use-mpa-style [fastq.gz]

I got this weird report file (few first lines):

d__|p__|c__|o__|f__     105114
d__|p__|c__|o__|f__|g__ 105105
d__|p__|c__|o__|f__|g__|s__     104267
d__|p__|c__|o__|f__|g__|s__     79
d__|p__|c__|o__|f__|g__|s__     12
d__|p__|c__|o__|f__|g__|s__     7
d__|p__|c__|o__|f__|g__|s__     6
d__|p__|c__|o__|f__|g__|s__     6
d__|p__|c__|o__|f__|g__|s__     6
d__|p__|c__|o__|f__|g__|s__     5

Anything I can do to get meaningful annotations?

EDIT

Tried with Kraken2 versions:

Same results for both versions

EDIT2

For the GTDB (full) it works perfectly