Unite Genus Species Names

Unite Genus Species Names

uniteGenusSpeciesNames(x)

Arguments

x

A phyloseq object

Value

A phyloseq with united genus and species in taxa_table .

Details

Unite genus and species names in tax_table phyloseq objects. E.g. Fusicatenibacter and saccharivorans are united to Fusicatenibacter.saccharivorans.

References

Shetty SA (2021). Utilities for microbiome analytics. https://github.com/RIVM-IIV-Microbiome/biomeUtils

Author

Sudarshan A. Shetty

Examples

library(biomeUtils)
data("FuentesIliGutData")
ps <- uniteGenusSpeciesNames(FuentesIliGutData)

head(tax_table(ps)[, 7])
#> Taxonomy Table:     [6 taxa by 1 taxonomic ranks]:
#>         Species                          
#> ASV302  NA                               
#> ASV636  NA                               
#> ASV500  NA                               
#> ASV7    "Fusicatenibacter.saccharivorans"
#> ASV2617 NA                               
#> ASV148  NA