fit2boot_out: Bootstrap Estimates for a 'lavaan' Output

In manymome: Mediation, Moderation and Moderated-Mediation After Model Fitting

Bootstrap Estimates for a lavaan Output

Description

Generate bootstrap estimates from the output of lavaan::sem().

Usage

fit2boot_out(fit)

fit2boot_out_do_boot(
  fit,
  R = 100,
  seed = NULL,
  parallel = FALSE,
  ncores = max(parallel::detectCores(logical = FALSE) - 1, 1),
  make_cluster_args = list(),
  progress = TRUE,
  internal = list()
)

Arguments

fit	The fit object. This function only supports a lavaan::lavaan object.
R	The number of bootstrap samples. Default is 100.
seed	The seed for the random resampling. Default is NULL.
parallel	Logical. Whether parallel processing will be used. Default is NULL.
ncores	Integer. The number of CPU cores to use when parallel is TRUE. Default is the number of non-logical cores minus one (one minimum). Will raise an error if greater than the number of cores detected by parallel::detectCores(). If ncores is set, it will override make_cluster_args.
make_cluster_args	A named list of additional arguments to be passed to parallel::makeCluster(). For advanced users. See parallel::makeCluster() for details. Default is list().
progress	Logical. Display progress or not. Default is TRUE.
internal	A list of arguments to be used internally for debugging. Default is list().

Details

This function is for advanced users. do_boot() is a function users should try first because do_boot() has a general interface for input-specific functions like this one.

If bootstrapping confidence intervals was requested when calling lavaan::sem() by setting se = "boot", fit2boot_out() can be used to extract the stored bootstrap estimates so that they can be reused by indirect_effect(), cond_indirect_effects() and related functions to form bootstrapping confidence intervals for effects such as indirect effects and conditional indirect effects.

If bootstrapping confidence was not requested when fitting the model by lavaan::sem(), fit2boot_out_do_boot() can be used to generate nonparametric bootstrap estimates from the output of lavaan::sem() and store them for use by indirect_effect(), cond_indirect_effects(), and related functions.

This approach removes the need to repeat bootstrapping in each call to indirect_effect(), cond_indirect_effects(), and related functions. It also ensures that the same set of bootstrap samples is used in all subsequent analyses.

Value

A boot_out-class object that can be used for the boot_out argument of indirect_effect(), cond_indirect_effects(), and related functions for forming bootstrapping confidence intervals.

The object is a list with the number of elements equal to the number of bootstrap samples. Each element is a list of the parameter estimates and sample variances and covariances of the variables in each bootstrap sample.

Functions

• fit2boot_out(): Process stored bootstrap estimates for functions such as cond_indirect_effects().

• fit2boot_out_do_boot(): Do bootstrapping and store information to be used by cond_indirect_effects() and related functions. Support parallel processing.

See Also

do_boot(), the general purpose function that users should try first before using this function.

Examples

library(lavaan)
data(data_med_mod_ab1)
dat <- data_med_mod_ab1
dat$"x:w" <- dat$x * dat$w
dat$"m:w" <- dat$m * dat$w
mod <-
"
m ~ x + w + x:w + c1 + c2
y ~ m + w + m:w + x + c1 + c2
"

# Bootstrapping not requested in calling lavaan::sem()
fit <- sem(model = mod, data = dat, fixed.x = FALSE,
           se = "none", baseline = FALSE)
fit_boot_out <- fit2boot_out_do_boot(fit = fit,
                                     R = 40,
                                     seed = 1234,
                                     progress = FALSE)
out <- cond_indirect_effects(wlevels = "w",
                             x = "x",
                             y = "y",
                             m = "m",
                             fit = fit,
                             boot_ci = TRUE,
                             boot_out = fit_boot_out)
out

manymome documentation built on Oct. 4, 2024, 5:10 p.m.