phyloseq_taxonomic_resolution: Estimate taxonomic resolution of data

View source: R/phyloseq_taxonomic_resolution.R

phyloseq_taxonomic_resolutionR Documentation

Estimate taxonomic resolution of data

Description

Estimate taxonomic resolution of data

Usage

phyloseq_taxonomic_resolution(physeq, add_counts = TRUE, justDF = FALSE)

Arguments

physeq

A phyloseq-class object

add_counts

Logical, add read and OTU counts on top of the bars (default, TRUE)

justDF

Logical, just return the data.frame, do not plot (default, FALSE)

Details

This function counts the number of OTUs and reads annotated at the lowest level of taxonomic classification and shows it on a barplot.

Value

ggplot-object (if justDF = FALSE) or a data.frame (if justDF = TRUE).

See Also

get_max_taxonomic_rank

Examples

data(GlobalPatterns)
gpt <- phyloseq_taxonomic_resolution(GlobalPatterns)
gpt
gpt$data_wide


vmikk/metagMisc documentation built on June 20, 2024, 7:20 a.m.