Calculate Zeta Diversity — z

This function calculates Zeta diversity for each group in the provided otutab.

This function plots the Zeta diversity results obtained from the z_diversity function.

z_diversity(otutab, group_df = NULL, zetadiv_params = list())

# S3 method for class 'zeta_res'
plot(x, lm_model = c("exp", "pl")[1], ribbon = FALSE, text = TRUE, ...)

Arguments

otutab: A matrix or data frame containing OTU (Operational Taxonomic Unit) counts.
group_df: A data frame containing group information.
zetadiv_params: Additional parameters to be passed to the Zeta.decline.mc function from the zetadiv package.
x: Zeta diversity results obtained from z_diversity function.
lm_model: The linear model to be used for fitting ('exp' or 'pl').
ribbon: Logical, whether to add a ribbon to the plot for standard deviation.
text: Logical, whether to add R-squared and p-value text annotations.
...: Additional arguments to be passed to ggplot2 functions.

Value

zeta_res

A ggplot object.

Examples

if (requireNamespace("zetadiv")) {
  data(otutab, package = "pcutils")
  zeta_result <- z_diversity(otutab, metadata["Group"], zetadiv_params = list(sam = 10))
  plot(zeta_result, lm_model = "exp", text = TRUE)
}
#> Loading required namespace: zetadiv