get_sample-methods: Returns all abundance values for species 'i'.

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

Returns all abundance values for species i.

Description

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

Usage

get_sample(physeq, i)

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

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

Arguments

physeq	(Required). otu_table-class, or phyloseq-class.
i	(Required). A single taxa/species/OTU ID for which you want to know the abundance in each sample.

Value

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

See Also

get_taxa taxa_names sample_names

Examples

data(esophagus)
taxa_names(esophagus)
get_sample(esophagus, "59_5_19")

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