get_taxa-methods: Returns all abundance values of sample 'i'.

In joey711/phyloseq: Handling and analysis of high-throughput microbiome census data

Returns all abundance values of sample i.

Description

This is a simple accessor function for investigating a single sample-of-interest.

Usage

get_taxa(physeq, i)

## S4 method for signature 'otu_table'
get_taxa(physeq, i)

## S4 method for signature 'phyloseq'
get_taxa(physeq, i)

Arguments

physeq	(Required). otu_table-class, or phyloseq-class.
i	(Required). A single sample for which you want to know the abundance of each species. Can be integer for index value, or sample name.

Value

An integer vector of the abundance values for each species in physeq for sample i

See Also

get_sample taxa_names sample_names

Examples

data(esophagus)
sample_names(esophagus)
get_taxa(esophagus, "B")

joey711/phyloseq documentation built on Nov. 4, 2022, 1:16 a.m.