Plots counts for several taxa across a co-variable

Plots counts for several taxa across a co-variable

plot_counts(
  ps,
  variable,
  tax_level = "genus",
  taxa = NULL,
  normalized = TRUE,
  pc = 0.5,
  only_data = FALSE,
  zeros = TRUE
)

Arguments

ps

A phyloseq data set.

variable

The name of the co-variable.

tax_level

The taxonomy level to use. Defaults to genus.

taxa

A character vector denoting the taxa to be plotted. Defaults to plotting all taxa.

normalized

Whether to normalize the counts using the DESeq2 size factors.

pc

The pseudo count to add.

only_data

Only get the raw data for the plot.

zeros

Whether to also include zero counts.

Value

Nothing.

Examples

 NULL
#> NULL