get_group_abundances: Taxa abundance summary by group

In microsud/microbiomeutilities: microbiomeutilities: Utilities for Microbiome Analytics

Taxa abundance summary by group

Description

Taxa abundance summary by group. Useful for description of microbiome.

Usage

get_group_abundances(x, level, group, transform = "compositional")

Arguments

x	phyloseq-class object
level	Taxonomic level uses microbiome::aggregate_taxa, if NULL with return OTU/ASVs level stats.
group	Provide overview by groups. Default=NULL and will return values for entire dataset, akin to taxa_summary.
transform	Either "compositional" or "counts". Default= compositional

Value

A data frames/ grouped tibble

Examples

## Not run: 
library(microbiomeutilities)
data("zackular2014")
p0 <- zackular2014
get_group_abundances(p0, level = "Phylum", group = "DiseaseState")

## End(Not run)

microsud/microbiomeutilities documentation built on Nov. 29, 2022, 12:18 a.m.