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sipost1 / kraken2OTUtable

Creates a simple OTU table from Kraken2 report.
MIT License
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How to get a full OTU table? #6

Open sebastianavalon opened 1 month ago

sebastianavalon commented 1 month ago

Hi, I have transposed the kraken files to the OTU table, unfortunately even though I had a lot of unidentified OTUs to the genus, it skipped them. Is it possible to perform an analysis that creates correct OTU tables, i.e. compiling the number of OTUs for the last identified taxonomic level?

Nowadays, a metataxonomic compilation only for a selected taxonomic level is almost worthless, and I still can't find any user-friendly functionality that creates full OTU tables.

Would you be able to solve this issue?

Best, Sebastian

sipost1 commented 1 month ago

Hi, yes sure I'll take a look when I have the time