Plot an Ordination Biplot — plot_ordination

Draw an ordination plot with feature loadings.

Usage

plot_ordination_biplot(
  object,
  method = c("PCA", "PCoA"),
  distance_method = c("bray", "jaccard", "euclidean"),
  x = NULL,
  y = NULL,
  color_by = NULL,
  shape_by = NULL,
  top_n_loading = 10,
  loading_scale = 1
)

Arguments

object: A microbiome_ordination or microbiome_dataset object.
method: Ordination method used when object is a dataset.
distance_method: Distance method used when computing PCoA.
x, y: Axis names. Defaults to the first two axes.
color_by: Optional sample metadata column.
shape_by: Optional sample metadata column.
top_n_loading: Number of feature loadings retained.
loading_scale: Multiplier applied to feature loading vectors.

Value

A ggplot object.

Examples

data("global_patterns", package = "microbiomedataset")
plot_ordination_biplot(global_patterns, method = "PCA", color_by = "SampleType")