get_microbiome_data: Download test microbiome data

In microsud/jeevanuDB: jeevanuDB: Example data sets for microbiome R pkg

Description

Test microbiome data in phyloseq format. It is duplicate from microbiomeutilities pkg.

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 object.

Examples

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

## End(Not run)

microsud/jeevanuDB documentation built on June 13, 2020, 12:24 a.m.