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# .wbm, .wbgee
# model parameters -------------------
#' @export
model_parameters.wbm <- function(model,
ci = 0.95,
ci_random = NULL,
bootstrap = FALSE,
iterations = 1000,
effects = "all",
group_level = FALSE,
exponentiate = FALSE,
p_adjust = NULL,
include_sigma = FALSE,
keep = NULL,
drop = NULL,
verbose = TRUE,
...) {
effects <- match.arg(effects, choices = c("fixed", "random", "all"))
params <- .mixed_model_parameters_generic(
model = model,
ci = ci,
bootstrap = bootstrap,
iterations = iterations,
merge_by = c("Parameter", "Component"),
standardize = NULL,
exponentiate = exponentiate,
effects = effects,
p_adjust = p_adjust,
group_level = group_level,
ci_method = NULL,
include_sigma = include_sigma,
ci_random = ci_random,
keep_parameters = keep,
drop_parameters = drop,
verbose = verbose,
...
)
attr(params, "object_name") <- insight::safe_deparse_symbol(substitute(model))
class(params) <- c("parameters_model", "see_parameters_model", "data.frame")
params
}
#' @export
model_parameters.wbgee <- model_parameters.wbm
#' @export
model_parameters.asym <- function(model,
ci = 0.95,
ci_method = NULL,
bootstrap = FALSE,
iterations = 1000,
standardize = NULL,
exponentiate = FALSE,
p_adjust = NULL,
include_info = getOption("parameters_info", FALSE),
keep = NULL,
drop = NULL,
verbose = TRUE,
...) {
params <- model_parameters.default(
model,
ci = ci,
ci_method = ci_method,
bootstrap = bootstrap,
iterations = iterations,
standardize = standardize,
exponentiate = exponentiate,
p_adjust = p_adjust,
include_info = include_info,
keep = keep,
drop = drop,
verbose = verbose,
...
)
attr(params, "no_caption") <- TRUE
params
}
# standard errors -------------------
#' @export
standard_error.wbm <- function(model, ...) {
s <- summary(model)
se <- c(
s$within_table[, "S.E."],
s$between_table[, "S.E."],
s$ints_table[, "S.E."]
)
params <- insight::get_parameters(model, effects = "fixed")
.data_frame(
Parameter = params$Parameter,
SE = as.vector(se),
Component = params$Component
)
}
#' @export
standard_error.wbgee <- standard_error.wbm
# p values -------------------
#' @export
p_value.wbm <- function(model, ...) {
s <- summary(model)
p <- c(
s$within_table[, "p"],
s$between_table[, "p"],
s$ints_table[, "p"]
)
params <- insight::get_parameters(model, effects = "fixed")
.data_frame(
Parameter = params$Parameter,
p = as.vector(p),
Component = params$Component
)
}
#' @export
p_value.wbgee <- p_value.wbm
# utils -------------------
.mixed_model_parameters_generic <- function(model,
ci,
ci_random = NULL,
bootstrap, # nolint
iterations, # nolint
merge_by, # nolint
standardize, # nolint
exponentiate, # nolint
effects, # nolint
p_adjust, # nolint
group_level, # nolint
ci_method, # nolint
include_sigma = FALSE,
keep_parameters = NULL,
drop_parameters = NULL,
verbose = TRUE,
...) {
params <- params_random <- params_variance <- att <- NULL
if (effects %in% c("fixed", "all")) {
params <- .model_parameters_generic(
model = model,
ci = ci,
bootstrap = bootstrap,
iterations = iterations,
merge_by = merge_by,
standardize = standardize,
exponentiate = exponentiate,
effects = "fixed",
p_adjust = p_adjust,
ci_method = ci_method,
include_sigma = include_sigma,
keep_parameters = keep_parameters,
drop_parameters = drop_parameters,
verbose = verbose,
...
)
params$Effects <- "fixed"
att <- attributes(params)
}
if (effects %in% c("random", "all") && isTRUE(group_level)) {
params_random <- .extract_random_parameters(model, ci = ci, effects = effects)
}
if (effects %in% c("random", "all") && isFALSE(group_level)) {
params_variance <- .extract_random_variances(model, ci = ci, effects = effects, ci_method = ci_method, ci_random = ci_random, verbose = verbose)
}
# merge random and fixed effects, if necessary
if (!is.null(params) && (!is.null(params_random) || !is.null(params_variance))) {
params$Level <- NA
params$Group <- ""
# reorder
if (!is.null(params_random)) {
params <- params[match(colnames(params_random), colnames(params))]
} else {
params <- params[match(colnames(params_variance), colnames(params))]
}
}
params <- rbind(params, params_random, params_variance)
if (!is.null(att)) {
attributes(params) <- utils::modifyList(att, attributes(params))
}
# remove empty column
if (!is.null(params$Level) && all(is.na(params$Level))) {
params$Level <- NULL
}
params
}
|
