relabu_boxplot {animalcules}R Documentation

Plot boxplots comparing different organism prevalence across conditions

Description

Plot boxplots comparing different organism prevalence across conditions

Usage

relabu_boxplot(MAE, tax_level, condition, organisms = c(),
  datatype = c("counts", "relative abundance", "logcpm"))

Arguments

MAE

A multi-assay experiment object

tax_level

The taxon level used for organisms

condition

Compare groups by condition e.g. 'SEX'

organisms

Include organisms for plotting.

datatype

counts, relative abundance,logcpm

Value

A plotly object

Examples

data_dir = system.file('extdata/MAE.rds', package = 'animalcules')
toy_data <- readRDS(data_dir)
p <- relabu_boxplot(toy_data,
                    tax_level='genus',
                    organisms=c('Escherichia', 'Actinomyces'),
                    condition='SEX',
                    datatype='logcpm')
p


[Package animalcules version 1.0.3 Index]