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update docs WoLr2
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qiita_pet/support_files/doc/source/processingdata/processing-recommendations.rst

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@@ -127,6 +127,33 @@ Reference databases
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Note that some of these are legacy option but not available for new processing.
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#. WoLr2 (“Web of Life” release 2): A significant upgrade from WoLr1. The genome
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pool is an even representation of microbial diversity, sampled from
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non-redundant bacterial and archaeal genomes from NCBI (RefSeq and GenBank,
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complete and draft). A high-quality reference phylogeny was reconstructed
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using the uDance workflow (manuscript in submission). Taxonomic
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classifications were curated according to phylogeny based on GTDB (default)
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and NCBI. Functional annotations were performed using EggNOG, GO, KEGG,
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MetaCyc, Pfam and UniRef.
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- Domains: Bacteria, Archaea
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- Number of genomes: 15,953
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- Total length (bp): 48,809,171,826
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- Citation: Zhu Q, Mai U, Pfeiffer W, et al. Phylogenomics of 10,575 genomes
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reveals evolutionary proximity between domains Bacteria and Archaea. Nat
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Commun. 2019. 10(1):5477. doi: 10.1038/s41467-019-13443-4.
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- Numbers of taxonomic units:
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- Domains: 2
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- Phyla: 124
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- Classes: 321
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- Orders: 914
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- Families: 2,057
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- Genera: 6,811
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- Species: 12,258
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#. WoLr1 ("Web of Life" release 1): An even representation of microbial diversity, selected using an prototype
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selection algorithm based on the MinHash distance matrix among all non-redundant bacterial and archaeal genomes
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from NCBI (RefSeq and GenBank, complete and draft), plus several genome quality control criteria. A

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