Plotting function

Usage

# S3 method for class 'bbdml'
plot(
  x,
  total = FALSE,
  color = NULL,
  shape = NULL,
  facet = NULL,
  title = NULL,
  B = 1000,
  sample_names = TRUE,
  data_only = FALSE,
  ...
)

Arguments

x: Object of class bbdml.
total: (Optional). Default FALSE. Boolean indicator for whether to plot on total counts scale
color: (Optional). Default NULL. The sample variable to map to different colors. Can be a single character string of the variable name in sample_data or a custom supplied vector with length equal to the number of samples. Use a character vector to have ggplot2 default.
shape: (Optional). Default NULL. The sample variable to map to different shapes. Can be a single character string of the variable name in sample_data or a custom supplied vector with length equal to the number of samples.
facet: (Optional). Default NULL. The sample variable to map to different panels in a facet grid. Must be a single character string of a variable name in sample_data.
title: (Optional). Default NULL. Character string. The main title for the graphic.
B: (Optional). Default 1000. Integer. Number of bootstrap simulations for prediction intervals. Use B = 0 for no prediction intervals.
sample_names: (Optional). Default TRUE. Boolean. If FALSE, remove sample names from the plot.
data_only: (Optional). Default FALSE. Boolean. If TRUE, only returns data frame.
...: There are no optional parameters at this time.

Value

Object of class ggplot. Plot of bbdml model fit with 95

Examples

data(soil_phylum_small_otu1)
mod <- bbdml(formula = cbind(W, M - W) ~ DayAmdmt,
phi.formula = ~ DayAmdmt,
data = soil_phylum_small_otu1)
# Here we use B = 50 for quick demonstration purposes.
# In practice, we recommend a higher value for B for more accurate intervals
plot(mod, color = "DayAmdmt", B = 50)