RESCRIPt: Reproducible sequence taxonomy reference database management
Fig 9
Taxonomic information (A–C) and classification accuracy (D–E) of UNITE ITS domain database with different filtering and clustering settings. Filtered versions include the "all Eukaryotes" 2020.04.02 release version containing all Eukaryotes ("All Euks"), filtered to contain only Fungi, and filtered to contain only Fungi with at least order-level taxonomic annotation ("Fungi Order"). Cluster levels indicate which UNITE release version was used: sequences clustered at 97% similarity, 99% similarity, or the UNITE "dynamic" species hypothesis threshold. Subpanels show taxonomic/classification characteristics at each taxonomic level: A, Number of unique taxonomic labels; B, Taxonomic entropy; C, proportion of taxa that terminate at that level; D, optimal classification accuracy (as F-Measure) without cross-validation (simulating best possible classification accuracy when the true label is known but classification accuracy may be confounded by other similar hits in the database); E, classification accuracy (F-Measure) with cross-validation (simulating realistic classification tasks when the correct label is unknown). Rank labels on x-axis: K = kingdom, P = phylum, C = class, O = order, F = family, G = genus, S = species. See Materials and Methods for more details on how these databases were created and processed.