plot: Plots bayesics objects.

In bayesics: Bayesian Analyses for One- and Two-Sample Inference and Regression Methods

Plots bayesics objects.

Description

Plots bayesics objects.

Usage

## S3 method for class 'lm_b'
plot(
  x,
  type,
  variable,
  exemplar_covariates,
  combine_pred_cred = TRUE,
  variable_seq_length = 30,
  return_as_list = FALSE,
  CI_level = 0.95,
  PI_level = 0.95,
  backtransformation = function(x) {
     x
 },
  ...
)

## S3 method for class 'aov_b'
plot(
  x,
  type = c("diagnostics", "cred band", "pred band"),
  combine_pred_cred = TRUE,
  return_as_list = FALSE,
  CI_level = 0.95,
  PI_level = 0.95,
  ...
)

## S3 method for class 'lm_b_bma'
plot(
  x,
  type = c("diagnostics", "cred band", "pred band"),
  variable,
  exemplar_covariates,
  combine_pred_cred = TRUE,
  bayes_pvalues_quantiles = c(0.01, 1:19/20, 0.99),
  variable_seq_length = 30,
  return_as_list = FALSE,
  CI_level = 0.95,
  PI_level = 0.95,
  seed = 1,
  backtransformation = function(x) {
     x
 },
  ...
)

## S3 method for class 'glm_b'
plot(
  x,
  type,
  variable,
  exemplar_covariates,
  combine_pred_cred = TRUE,
  variable_seq_length = 30,
  return_as_list = FALSE,
  CI_level = 0.95,
  PI_level = 0.95,
  seed = 1,
  ...
)

## S3 method for class 'np_glm_b'
plot(
  x,
  type,
  variable,
  exemplar_covariates,
  variable_seq_length = 30,
  return_as_list = FALSE,
  CI_level = 0.95,
  seed = 1,
  backtransformation = function(x) {
     x
 },
  ...
)

## S3 method for class 'mediate_b'
plot(x, type, return_as_list = FALSE, ...)

## S3 method for class 'survfit_b'
plot(x, n_draws = 10000, seed = 1, CI_level = 0.95, ...)

Arguments

x	A bayesics object
type	character. Select any of "diagnostics" ("dx" is also allowed), "pdp" (partial dependence plot), "cred band", and/or "pred band". NOTE: the credible and prediction bands only work for numeric variables. If plotting a mediate_b object, the valid values for type are "diagnostics" (or "dx"), "acme", or "ade".
variable	character. If type = "pdp" , which variable should be plotted?
exemplar_covariates	data.frame or tibble with exactly one row. Used to fix other covariates while varying the variable of interest for the plot.
combine_pred_cred	logical. If type includes both "cred band" and "pred band", should the credible band be superimposed on the prediction band or plotted separately?
variable_seq_length	integer. Number of points used to draw pdp.
return_as_list	logical. If TRUE, a list of ggplots will be returned, rather than a single plot produced by the patchwork package.
CI_level	Posterior probability covered by credible interval
PI_level	Posterior probability covered by prediction interval
backtransformation	function. If a transformation of the response variable was used, backtransformation should be the inverse of this transformation function. E.g., if you fit lm_b(log(y) ~ x), then set backtransformation=exp.
...	optional arguments.
bayes_pvalues_quantiles	ADD description!
seed	ADD description!
n_draws	integer. Number of posterior draws used for visualization of survival curves. Ignored if x is not a survfit_b object.

Value

If return_as_list=TRUE, a list of requested ggplots.

Examples

set.seed(2025)
N = 500
test_data <-
  data.frame(x1 = rnorm(N),
             x2 = rnorm(N),
             x3 = letters[1:5])
test_data$outcome <-
  rnorm(N,-1 + test_data$x1 + 2 * (test_data$x3 %in% c("d","e")) )
fit1 <-
  lm_b(outcome ~ x1 + x2 + x3,
       data = test_data)
plot(fit1)

bayesics documentation built on March 11, 2026, 5:07 p.m.