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SantosRAC / conekt_grasses_microbiome

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Implement NCBI taxonomy #4

Open SantosRAC opened 1 month ago

SantosRAC commented 1 month ago

I am currently implementing NCBI taxonomy in CoNekT Grasses Microbiome. I believe this is something we should keep synchronized (Plant Cell Wall Knowledgebase, PAGED and CoNekT Grasses Microbiome). @khidalgo85 and @JoaoNovoletti, let's talk about it during the JavaScript meeting.

This initial version of NCBI taxonomy will include only Bacteria, Plants and Fungi, Unassigned and Environmental samples. This is done by filtering NCBI divisions (IDs: 0, 4, 8, 11)

SantosRAC commented 1 month ago

Commit ef32fe8aad378cb9bf5e2503f7c3cae10e2f101c updated functions associated with NCBI import

Changes still must be done to incorporate NCBI and SILVA release dates or versions .