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Use type strains for GTDB to NCBI taxonomy translation #552
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Hi Florian, Interesting ideas. I'm not surprised to hear that the majority vote method used in Thanks, |
Hi Donovan, Thanks for your feedback. Here is what I performed so far:
Among 15,561 GTDB taxonomy entries, this strategy provides more precise annotation in 10% of cases. Best, |
Hi,
The gtdb_to_ncbi_majority_vote.py is great but is subject to biases when multiple genomes are incorrectly annotated on the NCBI.
Have you considered implementing more complex rules such as:
I have performed some tests and it helped a lot to recover correct NCBI taxonomy at species level.
Best,
Florian
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