Grab taxa table from a physeq object and format to tibble
taxa_data_phy.RdGrab taxa table from a physeq object and format to tibble
Examples
taxa_data_phy(physeq)
#> # A tibble: 20 × 7
#> asv Domain Phylum Class Order Family Genus
#> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
#> 1 ASV1 Bacteria Pseudomonadota Alphaproteobacteria Rhodospiril… Azosp… Azos…
#> 2 ASV2 Bacteria Spirochaetota Spirochaetia Spirochaeta… Spiro… Alka…
#> 3 ASV3 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrob… Phyll… Meso…
#> 4 ASV4 Bacteria Pseudomonadota Deltaproteobacteria Desulfuromo… Geoba… Geom…
#> 5 ASV5 Bacteria Actinomycetota Actinobacteria Streptospor… Strep… Nono…
#> 6 ASV6 Bacteria Actinomycetota Actinobacteria Streptomyce… Strep… Stre…
#> 7 ASV7 Bacteria Pseudomonadota Alphaproteobacteria Hyphomicrob… Methy… Meth…
#> 8 ASV8 Bacteria Bacillota Tissierellia Tissierella… Gotts… Gott…
#> 9 ASV9 Bacteria Pseudomonadota Alphaproteobacteria Sphingomona… Sphin… Sphi…
#> 10 ASV10 Bacteria Bacteroidota Flavobacteriia Flavobacter… Flavo… Flav…
#> 11 ASV11 Bacteria Bacteroidota Bacteroidia Bacteroidal… Willi… Acet…
#> 12 ASV12 Bacteria Pseudomonadota Betaproteobacteria Burkholderi… Comam… Hydr…
#> 13 ASV13 Bacteria Bacteroidota Bacteroidia Bacteroidal… Prevo… Prev…
#> 14 ASV14 Bacteria Pseudomonadota Deltaproteobacteria Desulfuromo… Desul… Desu…
#> 15 ASV15 Bacteria Pseudomonadota Gammaproteobacteria Pseudomonad… Morax… Psyc…
#> 16 ASV16 Bacteria Deferribacterota Deferribacteres Deferribact… Geovi… Geov…
#> 17 ASV17 Bacteria Actinomycetota Actinobacteria Micrococcal… Demeq… Deme…
#> 18 ASV18 Bacteria Actinomycetota Actinobacteria Mycobacteri… Gordo… Gord…
#> 19 ASV19 Bacteria Actinomycetota Actinobacteria Mycobacteri… Coryn… Cory…
#> 20 ASV20 Bacteria Bacillota Bacilli Lactobacill… Strep… Stre…