do_alpha_div_test {animalcules} | R Documentation

## Alpha diversity statistical test

### Description

Alpha diversity statistical test

### Usage

    do_alpha_div_test(
      MAE,
      tax_level,
      condition,
      alpha_metric = c("inverse_simpson", "gini_simpson", "shannon", "fisher", "coverage"),
      alpha_stat = c("Wilcoxon rank sum test", "T-test", "Kruskal-Wallis")
    )

### Arguments

`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
`alpha_stat` | Which stat test to use

### Value

A dataframe

### Examples

    data_dir = system.file("extdata/MAE.rds", package = "animalcules")
    toy_data <- readRDS(data_dir)
    p <- do_alpha_div_test(toy_data,
                           tax_level = "genus",
                           condition = "DISEASE",
                           alpha_metric = "shannon",
                           alpha_stat = "Wilcoxon rank sum test")
    p

[Package animalcules version 1.3.6 Index]