Summarize a phyloseq-class object using a plot. — summary_plot_pq • MiscMetabar

Graphical representation of a phyloseq object.

Usage

summary_plot_pq(
  physeq,
  add_info = TRUE,
  min_seq_samples = 500,
  clean_pq = TRUE
)

Arguments

physeq: (required): a phyloseq-class object obtained using the phyloseq package.
add_info: Does the bottom down corner contain extra informations?
min_seq_samples: (int): Used only when add_info is set to true to print the number of samples with less sequences than this number.
clean_pq: (logical): Does the phyloseq object is cleaned using the clean_pq() function?

Value

A ggplot2 object

Examples


summary_plot_pq(data_fungi)
#> Cleaning suppress 0 taxa and 0 samples.

summary_plot_pq(data_fungi, add_info = FALSE) + scale_fill_viridis_d()
#> Cleaning suppress 0 taxa and 0 samples.
#> Scale for fill is already present.
#> Adding another scale for fill, which will replace the existing scale.