Plot Microbiome Composition — plot_composition • microbiomedataset

Draw a stacked composition barplot at a selected taxonomic rank.

Usage

plot_composition(
  object,
  taxonomic_rank = c("Kingdom", "Phylum", "Class", "Order", "Family", "Genus", "Species"),
  top_n = 10,
  x = "sample_id",
  relative = TRUE,
  facet_by = NULL
)

Arguments

object: A microbiome_dataset object.
taxonomic_rank: Taxonomic rank displayed in the stack.
top_n: Number of dominant taxa shown per sample.
x: Sample metadata column shown on the x axis.
relative: Whether to show relative abundance.
facet_by: Optional sample metadata column used for faceting.

Value

A ggplot object.

Examples

data("global_patterns", package = "microbiomedataset")

plot_composition(
  object = global_patterns,
  taxonomic_rank = "Phylum",
  top_n = 8,
  x = "SampleType"
)