Problems with GTDB taxonomy assigments to MARdb sequences about metatag

[micronuria]

It is related with issues #14 and #31

[Robaina]

Hi there,

one of the issues seems to be due to MAR db employing a NCBI taxonomy tool to classify genomes instead of GTDB-TK. Thus, the observed taxonomy in the final output, since we were using the MAR taxonomy database.

Doing some research, I have found that the Oceans Microbiomics Database used GTDB-TK to classify their genome collection (paper here). So we can use their database to assign taxonomy to MAR db genomes, at least the ones that are included in their genome collection.

I'll expand the codebase to include the possibility to assign NCBI or GTDB taxonomy to MAR sequences (those whose genome contains assigned taxonomy, that is).

This will solve one of the issues. Regarding the lack of MMP identifiers, this is something not related to the code per se, but to the MAR db preprocessing. We will have to dig in to figure out what's happening.