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utils.R
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utils.R
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.str_to_sym <- function(x) {
insight::check_if_installed("rlang")
if (!is.null(x) && is.character(x)) {
x <- rlang::sym(x)
}
return(x)
}
.as.data.frame_density <- function(x, ...) {
data.frame(x = x$x, y = x$y)
}
# safe conversion from factor to numeric
.factor_to_numeric <- function(x) {
if (is.numeric(x)) {
return(x)
}
if (anyNA(suppressWarnings(as.numeric(as.character(stats::na.omit(x)))))) {
if (is.character(x)) {
x <- as.factor(x)
}
levels(x) <- 1:nlevels(x)
}
as.numeric(as.character(x))
}
.clean_parameter_names <- function(params, grid = FALSE) {
params <- unique(params)
labels <- params
# clean parameters names
params <- gsub("(b_|bs_|bsp_|bcs_)(.*)", "\\2", params, perl = TRUE)
params <- gsub("^zi_(.*)", "\\1 (Zero-Inflated)", params, perl = TRUE)
params <- gsub("(.*)_zi$", "\\1 (Zero-Inflated)", params, perl = TRUE)
params <- gsub("(.*)_disp$", "\\1 (Dispersion)", params, perl = TRUE)
# clean random effect parameters names
params <- gsub("r_(.*)\\.(.*)\\.", "(re) \\1", params)
params <- gsub("b\\[\\(Intercept\\) (.*)\\]", "(re) \\1", params)
params <- gsub("b\\[(.*) (.*)\\]", "(re) \\2", params)
# clean smooth terms
params <- gsub("^smooth_sd\\[(.*)\\]", "\\1 (smooth)", params)
params <- gsub("^sds_", "\\1 (Smooth)", params)
# remove ".1" etc. suffix
params <- gsub("(.*)(\\.)(\\d)$", "\\1 \\3", params)
# fix zero-inflation part in random effects
params <- gsub("(.*)__zi\\s(.*)", "\\1 \\2 (Zero-Inflated)", params, perl = TRUE)
# fix temporary random effects token
params <- gsub("\\(re\\)\\s(.*)", "\\1 (Random)", params, perl = TRUE)
# correlation and sd: brms
cor_sd <- grepl("(sd_|cor_)(.*)", params)
if (any(cor_sd)) {
params[cor_sd] <- paste("SD/Cor: ", gsub("^(sd_|cor_)(.*?)__(.*)", "\\3", params[cor_sd], perl = TRUE))
# replace "__" by "~"
cor_only <- !is.na(params[cor_sd]) & startsWith(params[cor_sd], "cor_")
if (any(cor_only)) {
params[cor_sd][which(cor_sd)[cor_only]] <- sub("__", " ~ ", params[cor_sd][which(cor_sd)[cor_only]], fixed = TRUE)
}
}
# correlation and sd: rstanarm
cor_sd <- grepl("^Sigma\\[(.*)", params)
if (any(cor_sd)) {
parm1 <- gsub("^Sigma\\[(.*):(.*),(.*)\\]", "\\2", params[cor_sd], perl = TRUE)
parm2 <- gsub("^Sigma\\[(.*):(.*),(.*)\\]", "\\3", params[cor_sd], perl = TRUE)
params[which(cor_sd)] <- parm1
rand_cor <- parm1 != parm2
if (any(rand_cor)) {
params[which(cor_sd)[rand_cor]] <- paste0(parm1[rand_cor], " ~ ", parm2[rand_cor])
}
params[cor_sd] <- paste("SD: ", params[cor_sd])
}
if (grid) {
params <- trimws(gsub("(Zero-Inflated)", "", params, fixed = TRUE))
params <- trimws(gsub("(Random)", "", params, fixed = TRUE))
params <- trimws(gsub("(Dispersion)", "", params, fixed = TRUE))
} else {
params <- gsub("(Zero-Inflated) (Random)", "(Random, Zero-Inflated)", params, fixed = TRUE)
}
stats::setNames(params, labels)
}
.fix_facet_names <- function(x) {
if ("Component" %in% names(x)) {
x$Component <- as.character(x$Component)
if (!"Effects" %in% names(x)) {
x$Component[x$Component == "conditional"] <- "Conditional"
x$Component[x$Component == "zero_inflated"] <- "Zero-Inflated"
x$Component[x$Component == "dispersion"] <- "Dispersion"
x$Component[x$Component == "simplex"] <- "Monotonic Effects"
} else {
x$Component[x$Component == "conditional"] <- "(Conditional)"
x$Component[x$Component == "zero_inflated"] <- "(Zero-Inflated)"
x$Component[x$Component == "dispersion"] <- "(Dispersion)"
x$Component[x$Component == "simplex"] <- "(Monotonic Effects)"
}
}
if ("Effects" %in% names(x)) {
x$Effects <- as.character(x$Effects)
x$Effects[x$Effects == "fixed"] <- "Fixed Effects"
x$Effects[x$Effects == "random"] <- "Random Effects"
}
x
}
.intercepts <- function() {
c(
"(intercept)_zi",
"intercept (zero-inflated)",
"intercept",
"zi_intercept",
"(intercept)",
"b_intercept",
"b_zi_intercept"
)
}
.is_intercept <- function(x) {
x <- tolower(x)
x %in% .intercepts() | grepl("intercept", x)
}
.remove_intercept <- function(x, column = "Parameter", show_intercept = FALSE) {
if (!show_intercept) {
remove <- which(.is_intercept(x[[column]]))
if (length(remove)) x <- x[-remove, ]
}
x
}
.percents <- function(x) {
insight::format_value(x = x, as_percent = TRUE, digits = 0L)
}
.is_integer <- function(x) {
is.numeric(x) && all(floor(x) == x, na.rm = TRUE)
}
#' Default value for `NULL`
#'
#' @param x,y If `x` is NULL, will return `y`; otherwise returns `x`.
#' @name op-null-default
#' @examples
#' 4 %||% 5
#' NULL %||% 1
#' @keywords internal
#' @noRd
`%||%` <- function(x, y) {
if (is.null(x)) y else x
}