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Example data
example_v4.fasta holds 92 amplicon sequence variants (ASVs) of the 16S
rRNA gene V4 region, and example_v4_counts.tsv their read counts in six
samples made to resemble the human gut, oral cavity and vagina (two each).
The sequences are V4 sequences of public TaxoBench mock communities: the mockrobiota mock, the gut and vaginal mocks, and the communities simulated from digestive-system, lung, skin, sputum and mixed biome compositions. They were chosen by their TaxoBench reference species, from species typical of each body site that the V4 model names at species level. With taxonova 26.11.0 and the V4 model, all 92 are named at species with the model's own thresholds (the default); with a species confidence of 0.8, eight are named at genus only.
The read counts are illustrative, not measured. Species shares were set to
resemble each body site, split over that species' sequences, padded with a
low-abundance tail of other site-typical species, and drawn as a random
sample of 9,000 to 18,000 reads per sample with a fixed seed. The second
vaginal sample is made to look dysbiotic (Lactobacillus iners with
Prevotella bivia and other anaerobes). ASVs are numbered from ASV001 in
order of total count.