How to get a full OTU table?

[sebastianavalon]

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]

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

[lauramason326]

Hi - similar question. I would like to get an OTU table with counts for ie reads that could only be identified to the genus level, for example, but not including all the counts for the reads assigned to that genus and its children
Thanks!
Laura