get_microbiome_data: Download test microbiome data

In microsud/microbiomeutilities: microbiomeutilities: Utilities for Microbiome Analytics

Download test microbiome data

Description

Test microbiome data in phyloseq format.

Usage

get_microbiome_data(disease, study)

Arguments

disease	Disease of interest as shown in list_microbiome_data()
study	Name of the study as shown in list_microbiome_data()

Details

You can download few example datasets in phyloseq format from Duvallet et al 2017 https://www.nature.com/articles/s41467-017-01973-8.pdf?origin=ppub. The source file for these data is the microbiomedatarepo https://github.com/microsud/microbiomedatarepo.

Value

phyloseq-class object.

Examples

## Not run: 
# Example data
library(microbiome)
library(microbiomeUtilities)
list_microbiome_data()
ps1 <- get_microbiome_data(disease = "CDI", "Schubert2014_CDI")
print_ps(ps1)

## End(Not run)

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