diversity_beta_heatmap: Beta diversity heatmap

In compbiomed/animalcules: Interactive microbiome analysis toolkit

Beta diversity heatmap

Description

Beta diversity heatmap

Usage

diversity_beta_heatmap(
  MAE,
  tax_level,
  input_beta_method,
  input_bdhm_select_conditions,
  input_bdhm_sort_by = c("nosort", "conditions")
)

Arguments

MAE	A multi-assay experiment object
tax_level	The taxon level used for organisms
input_beta_method	bray, jaccard
input_bdhm_select_conditions	Which condition to group samples
input_bdhm_sort_by	Sorting option e.g. "nosort", "conditions"

Value

A plotly object

Examples

data_dir <- system.file("extdata/MAE.rds", package = "animalcules")
toy_data <- readRDS(data_dir)
p <- diversity_beta_heatmap(toy_data,
  tax_level = "genus",
  input_beta_method = "bray",
  input_bdhm_select_conditions = "DISEASE",
  input_bdhm_sort_by = "conditions"
)
p

compbiomed/animalcules documentation built on Feb. 7, 2024, 12:13 p.m.