alpha_div_boxplot: Alpha diversity boxplot
In hiplot/animalcules: Interactive microbiome analysis toolkit

Description Usage Arguments Value Examples

Alpha diversity boxplot

alpha_div_boxplot(
  MAE,
  tax_level,
  condition,
  alpha_metric = c("inverse_simpson", "gini_simpson", "shannon", "fisher", "coverage",
    "unit")
)

`MAE`	A multi-assay experiment object
`tax_level`	The taxon level used for organisms
`condition`	Which condition to group samples
`alpha_metric`	Which alpha diversity metric to use

A plotly object

data_dir = system.file('extdata/MAE.rds', package = 'animalcules')
toy_data <- readRDS(data_dir)
p <- alpha_div_boxplot(toy_data,
                       tax_level = 'genus',
                       condition = 'DISEASE',
                       alpha_metric = 'shannon')
p