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Plot Abundance Density

Source: R/plot_microbiome_visualization_extended.R
plot_abundance_density.Rd

Plot abundance distributions for dominant taxa.

Usage

plot_abundance_density(
  object,
  taxonomic_rank = c("Kingdom", "Phylum", "Class", "Order", "Family", "Genus", "Species"),
  top_n = 10,
  relative = TRUE,
  log10_transform = FALSE
)

Arguments

object

A microbiome_dataset object.

taxonomic_rank

Taxonomic rank used for aggregation.

top_n

Number of taxa displayed.

relative

Whether to use relative abundance.

log10_transform

Should abundance values be log10 transformed with a pseudocount?

Value

A ggplot object.

Examples

data("global_patterns", package = "microbiomedataset")
plot_abundance_density(global_patterns, taxonomic_rank = "Phylum", top_n = 5)