R/create_ad.R
In psychmeta/psychmeta: Psychometric Meta-Analysis Toolkit
Defines functions
create_ad_unprocessed
.create_ad_int
create_ad_tsa
create_ad_int
Documented in
.create_ad_int
create_ad_int <- function(rxxi = NULL, n_rxxi = NULL, wt_rxxi = n_rxxi,
rxxi_type = rep("alpha", length(rxxi)),
k_items_rxxi = rep(NA, length(rxxi)),
rxxa = NULL, n_rxxa = NULL, wt_rxxa = n_rxxa,
rxxa_type = rep("alpha", length(rxxa)),
k_items_rxxa = rep(NA, length(rxxa)),
ux = NULL, ni_ux = NULL, na_ux = NULL, wt_ux = ni_ux, dep_sds_ux_obs = FALSE,
ut = NULL, ni_ut = NULL, na_ut = NULL, wt_ut = ni_ut, dep_sds_ut_obs = FALSE,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE,
var_unbiased = TRUE, ...){
if(length(rxxi) > 0){
if(length(n_rxxi) == 0){
n_rxxi <- rep(NA, length(rxxi))
if(length(wt_rxxi) == 0){
wt_rxxi <- rep(1, length(rxxi))
}else{
if(length(wt_rxxi) != length(rxxi))
stop("When wt_rxxi is not NULL, the lengths of rxxi and wt_rxxi must be equal", call. = FALSE)
}
}else{
if(length(n_rxxi) != length(rxxi))
stop("When n_rxxi is not NULL, the lengths of rxxi and n_rxxi must be equal", call. = FALSE)
if(length(wt_rxxi) == 0)
wt_rxxi <- n_rxxi
}
if(length(rxxi_type) == 0){
rxxi_type <- rep("alpha", length(rxxi))
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(rxxi_type) == 1)
rxxi_type <- rep(rxxi_type, length(rxxi))
if(length(rxxi_type) != length(rxxi))
stop("When rxxi_type is not length 1, the lengths of rxxi and rxxi_type must be equal", call. = FALSE)
}
if(length(k_items_rxxi) == 0){
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(k_items_rxxi) == 1)
k_items_rxxi <- rep(k_items_rxxi, length(rxxi))
if(length(k_items_rxxi) != length(rxxi))
stop("When k_items_rxxi is not length 1, the lengths of rxxi and k_items_rxxi must be equal", call. = FALSE)
}
}else{
n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(length(rxxa) > 0){
if(length(n_rxxa) == 0){
n_rxxa <- rep(NA, length(rxxa))
if(length(wt_rxxa) == 0){
wt_rxxa <- rep(1, length(rxxa))
}else{
if(length(wt_rxxa) != length(rxxa))
stop("When wt_rxxa is not NULL, the lengths of rxxa and wt_rxxa must be equal", call. = FALSE)
}
}else{
if(length(n_rxxa) != length(rxxa))
stop("When n_rxxa is not NULL, the lengths of rxxa and n_rxxa must be equal", call. = FALSE)
if(length(wt_rxxa) == 0)
wt_rxxa <- n_rxxa
}
if(length(rxxa_type) == 0){
rxxa_type <- rep("alpha", length(rxxa))
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(rxxa_type) == 1)
rxxa_type <- rep(rxxa_type, length(rxxa))
if(length(rxxa_type) != length(rxxa))
stop("When rxxa_type is not length 1, the lengths of rxxa and rxxa_type must be equal", call. = FALSE)
}
if(length(k_items_rxxa) == 0){
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(k_items_rxxa) == 1)
k_items_rxxa <- rep(k_items_rxxa, length(rxxa))
if(length(k_items_rxxa) != length(rxxa))
stop("When k_items_rxxa is not length 1, the lengths of rxxa and k_items_rxxa must be equal", call. = FALSE)
}
}else{
n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(length(ux) > 0){
if(length(ni_ux) == 0){
ni_ux <- rep(NA, length(ux))
if(length(wt_ux) == 0){
wt_ux <- rep(1, length(ux))
}else{
if(length(wt_ux) != length(ux))
stop("When wt_ux is not NULL, the lengths of ux and wt_ux must be equal", call. = FALSE)
}
}else{
if(length(ni_ux) != length(ux))
stop("When ni_ux is not NULL, the lengths of ux and ni_ux must be equal", call. = FALSE)
if(length(wt_ux) == 0)
wt_ux <- ni_ux
}
if(length(na_ux) == 0){
na_ux <- rep(NA, length(ux))
}else{
if(length(na_ux) != length(ux))
stop("When na_ux is not NULL, the lengths of ux and na_ux must be equal", call. = FALSE)
}
if(length(dep_sds_ux_obs) == 0){
dep_sds_ux_obs <- rep(FALSE, length(ux))
}else{
if(length(dep_sds_ux_obs) == 1)
dep_sds_ux_obs <- rep(dep_sds_ux_obs, length(ux))
if(length(dep_sds_ux_obs) != length(ux))
stop("When dep_sds_ux_obs is not length 1, the lengths of ux and dep_sds_ux_obs must be equal", call. = FALSE)
}
}else{
ni_ux <- wt_ux <- na_ux <- dep_sds_ux_obs <- NULL
}
if(length(ut) > 0){
if(length(ni_ut) == 0){
ni_ut <- rep(NA, length(ut))
if(length(wt_ut) == 0){
wt_ut <- rep(1, length(ut))
}else{
if(length(wt_ut) != length(ut))
stop("When wt_ut is not NULL, the lengths of ut and wt_ut must be equal", call. = FALSE)
}
}else{
if(length(ni_ut) != length(ut))
stop("When ni_ut is not NULL, the lengths of ut and ni_ut must be equal", call. = FALSE)
if(length(wt_ut) == 0)
wt_ut <- ni_ut
}
if(length(na_ut) == 0){
na_ut <- rep(NA, length(ut))
}else{
if(length(na_ut) != length(ut))
stop("When na_ut is not NULL, the lengths of ut and na_ut must be equal", call. = FALSE)
}
if(length(dep_sds_ut_obs) == 0){
dep_sds_ut_obs <- rep(FALSE, length(ut))
}else{
if(length(dep_sds_ut_obs) == 1)
dep_sds_ut_obs <- rep(dep_sds_ut_obs, length(ut))
if(length(dep_sds_ut_obs) != length(ut))
stop("When dep_sds_ut_obs is not length 1, the lengths of ut and dep_sds_ut_obs must be equal", call. = FALSE)
}
}else{
ni_ut <- wt_ut <- na_ut <- dep_sds_ut_obs <- NULL
}
inputs <- list(rxxi = rxxi, n_rxxi = n_rxxi, wt_rxxi = wt_rxxi, rxxi_type = rxxi_type, k_items_rxxi = k_items_rxxi,
rxxa = rxxa, n_rxxa = n_rxxa, wt_rxxa = wt_rxxa, rxxa_type = rxxa_type, k_items_rxxa = k_items_rxxa,
ux = ux, ni_ux = ni_ux, na_ux = na_ux, wt_ux = wt_ux, dep_sds_ux_obs = dep_sds_ux_obs,
ut = ut, ni_ut = ni_ut, na_ut = na_ut, wt_ut = wt_ut, dep_sds_ut_obs = dep_sds_ut_obs,
...)
if(is.null(wt_rxxi)) wt_rxxi <- rep(1, length(rxxi))
if(is.null(wt_rxxa)) wt_rxxa <- rep(1, length(rxxa))
if(is.null(wt_ux)) wt_ux <- rep(1, length(ux))
if(is.null(wt_ut)) wt_ut <- rep(1, length(ut))
art_mean <- function(art_vec, wt_vec, null_value = NULL){
if(!is.null(art_vec) & !is.null(wt_vec)){
wt_mean(x = art_vec, wt = wt_vec)
}else{
null_value
}
}
art_var <- function(art_vec, wt_vec, null_value = NULL, var_unbiased = TRUE){
if(!is.null(art_vec) & !is.null(wt_vec)){
wt_var(x = art_vec, wt = wt_vec, unbiased = var_unbiased)
}else{
null_value
}
}
if(!is.null(rxxa)){
filtered_rxxa <- filter_rel(rel_vec = rxxa, wt_vec = wt_rxxa)
rxxa_type <- as.character(rxxa_type)
if(length(rxxa_type) == 1) rxxa_type <- rep(rxxa_type, length(rxxa))
if(!is.null(n_rxxa)) n_rxxa <- n_rxxa[filtered_rxxa]
rxxa <- rxxa[filtered_rxxa]
wt_rxxa <- wt_rxxa[filtered_rxxa]
rxxa_type <- rxxa_type[filtered_rxxa]
if(!is.null(k_items_rxxa)) k_items_rxxa <- k_items_rxxa[filtered_rxxa]
if(length(rxxa) == 0) rxxa <- n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(!is.null(rxxi)){
filtered_rxxi <- filter_rel(rel_vec = rxxi, wt_vec = wt_rxxi)
rxxi_type <- as.character(rxxi_type)
if(length(rxxi_type) == 1) rxxi_type <- rep(rxxi_type, length(rxxi))
if(!is.null(n_rxxi)) n_rxxi <- n_rxxi[filtered_rxxi]
rxxi <- rxxi[filtered_rxxi]
wt_rxxi <- wt_rxxi[filtered_rxxi]
rxxi_type <- rxxi_type[filtered_rxxi]
if(!is.null(k_items_rxxi)) k_items_rxxi <- k_items_rxxi[filtered_rxxi]
if(length(rxxi) == 0) rxxi <- n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(!is.null(ux)){
filtered_ux <- filter_u(u_vec = ux, wt_vec = wt_ux)
if(!is.null(ni_ux)) ni_ux <- ni_ux[filtered_ux]
if(!is.null(na_ux)) na_ux <- na_ux[filtered_ux]
if(!is.null(dep_sds_ux_obs)) dep_sds_ux_obs <- dep_sds_ux_obs[filtered_ux]
ux <- ux[filtered_ux]
wt_ux <- wt_ux[filtered_ux]
if(length(ux) == 0) ux <- ni_ux <- na_ux <- wt_ux <- dep_sds_ux_obs <- NULL
}
if(!is.null(ut)){
filtered_ut <- filter_u(u_vec = ut, wt_vec = wt_ut)
if(!is.null(ni_ut)) ni_ut <- ni_ut[filtered_ut]
if(!is.null(na_ut)) na_ut <- na_ut[filtered_ut]
if(!is.null(dep_sds_ut_obs)) dep_sds_ut_obs <- dep_sds_ut_obs[filtered_ut]
ut <- ut[filtered_ut]
wt_ut <- wt_ut[filtered_ut]
if(length(ut) == 0) ut <- ni_ut <- na_ut <- wt_ut <- dep_sds_ut_obs <- NULL
}
.replace_null <- function(x){
if(length(x) == 0){
NULL
}else{
x
}
}
qxa_mean <- art_mean(art_vec = rxxa^.5, wt_vec = wt_rxxa)
qxi_mean <- art_mean(art_vec = rxxi^.5, wt_vec = wt_rxxi)
rxxa_mean <- art_mean(art_vec = rxxa, wt_vec = wt_rxxa)
rxxi_mean <- art_mean(art_vec = rxxi, wt_vec = wt_rxxi)
qxa_var <- art_var(art_vec = rxxa^.5, wt_vec = wt_rxxa, var_unbiased = var_unbiased)
qxi_var <- art_var(art_vec = rxxi^.5, wt_vec = wt_rxxi, var_unbiased = var_unbiased)
rxxa_var <- art_var(art_vec = rxxa, wt_vec = wt_rxxa, var_unbiased = var_unbiased)
rxxi_var <- art_var(art_vec = rxxi, wt_vec = wt_rxxi, var_unbiased = var_unbiased)
ux_mean <- art_mean(art_vec = ux, wt_vec = wt_ux)
ut_mean <- art_mean(art_vec = ut, wt_vec = wt_ut)
if(!is.null(rxxa)){
if(!is.null(n_rxxa)) if(all(is.na(n_rxxa))) n_rxxa <- NULL
if(!is.null(n_rxxa)){
mean_n_rxxa <- mean(n_rxxa, na.rm = TRUE)
var_e_rxxa <- var_error_rel(rel = rxxa_mean, n = n_rxxa, rel_type = rxxa_type, k_items = k_items_rxxa)
var_e_rxxa <- wt_mean(x = var_e_rxxa, wt = n_rxxa)
var_e_qxa <- var_error_q(q = qxa_mean, n = n_rxxa, rel_type = rxxa_type, k_items = k_items_rxxa)
var_e_qxa <- wt_mean(x = var_e_qxa, wt = n_rxxa)
}else{
mean_n_rxxa <- NULL
var_e_rxxa <- var_e_qxa <- 0
}
rxxa_consistency <- convert_reltype2consistency(rel_type = rxxa_type)
if(any(rxxa_consistency)){
rxxa_c <- .replace_null(x = rxxa[rxxa_consistency])
wt_rxxa_c <- .replace_null(x = wt_rxxa[rxxa_consistency])
n_rxxa_c <- .replace_null(x = n_rxxa[rxxa_consistency])
qxa_mean_c <- art_mean(art_vec = rxxa_c^.5, wt_vec = wt_rxxa_c)
rxxa_mean_c <- art_mean(art_vec = rxxa_c, wt_vec = wt_rxxa_c)
qxa_var_c <- art_var(art_vec = rxxa_c^.5, wt_vec = wt_rxxa_c, var_unbiased = var_unbiased)
rxxa_var_c <- art_var(art_vec = rxxa_c, wt_vec = wt_rxxa_c, var_unbiased = var_unbiased)
if(!is.null(n_rxxa_c)){
mean_n_rxxa_c <- mean(n_rxxa_c, na.rm = TRUE)
rxxa_type_c <- .replace_null(x = rxxa_type[rxxa_consistency])
k_items_rxxa_c <- .replace_null(x = k_items_rxxa[rxxa_consistency])
var_e_rxxa_c <- var_error_rel(rel = rxxa_mean_c, n = n_rxxa_c, rel_type = rxxa_type_c, k_items = k_items_rxxa_c)
var_e_rxxa_c <- wt_mean(x = var_e_rxxa_c, wt = n_rxxa_c)
var_e_qxa_c <- var_error_q(q = qxa_mean_c, n = n_rxxa_c, rel_type = rxxa_type_c, k_items = k_items_rxxa_c)
var_e_qxa_c <- wt_mean(x = var_e_qxa_c, wt = n_rxxa_c)
}else{
mean_n_rxxa_c <- NULL
var_e_rxxa_c <- var_e_qxa_c <- 0
}
}else{
qxa_mean_c <- rxxa_mean_c <- qxa_var_c <- rxxa_var_c <- NULL
rxxa_c <- wt_rxxa_c <- NULL
var_e_rxxa_c <- var_e_qxa_c <- NULL
}
if(any(!rxxa_consistency)){
rxxa_m <- .replace_null(x = rxxa[!rxxa_consistency])
wt_rxxa_m <- .replace_null(x = wt_rxxa[!rxxa_consistency])
n_rxxa_m <- .replace_null(x = n_rxxa[!rxxa_consistency])
qxa_mean_m <- art_mean(art_vec = rxxa_m^.5, wt_vec = wt_rxxa_m)
rxxa_mean_m <- art_mean(art_vec = rxxa_m, wt_vec = wt_rxxa_m)
qxa_var_m <- art_var(art_vec = rxxa_m^.5, wt_vec = wt_rxxa_m, var_unbiased = var_unbiased)
rxxa_var_m <- art_var(art_vec = rxxa_m, wt_vec = wt_rxxa_m, var_unbiased = var_unbiased)
if(!is.null(n_rxxa_m)){
mean_n_rxxa_m <- mean(n_rxxa_m, na.rm = TRUE)
rxxa_type_m <- .replace_null(x = rxxa_type[!rxxa_consistency])
k_items_rxxa_m <- .replace_null(x = k_items_rxxa[!rxxa_consistency])
var_e_rxxa_m <- var_error_rel(rel = rxxa_mean_m, n = n_rxxa_m, rel_type = rxxa_type_m, k_items = k_items_rxxa_m)
var_e_rxxa_m <- wt_mean(x = var_e_rxxa_m, wt = n_rxxa_m)
var_e_qxa_m <- var_error_q(q = qxa_mean_m, n = n_rxxa_m, rel_type = rxxa_type_m, k_items = k_items_rxxa_m)
var_e_qxa_m <- wt_mean(x = var_e_qxa_m, wt = n_rxxa_m)
}else{
mean_n_rxxa_m <- NULL
var_e_rxxa_m <- var_e_qxa_m <- 0
}
}else{
qxa_mean_m <- rxxa_mean_m <- qxa_var_m <- rxxa_var_m <- NULL
rxxa_m <- wt_rxxa_m <- NULL
var_e_rxxa_m <- var_e_qxa_m <- NULL
}
}else{
qxa_mean_c <- rxxa_mean_c <- qxa_var_c <- rxxa_var_c <- NULL
qxa_mean_m <- rxxa_mean_m <- qxa_var_m <- rxxa_var_m <- NULL
rxxa_c <- wt_rxxa_c <- NULL
rxxa_m <- wt_rxxa_m <- NULL
var_e_rxxa <- var_e_rxxa_c <- var_e_rxxa_m <- NULL
var_e_qxa <- var_e_qxa_c <- var_e_qxa_m <- NULL
}
if(!is.null(rxxi)){
if(!is.null(n_rxxi)) if(all(is.na(n_rxxi))) n_rxxi <- NULL
if(!is.null(n_rxxi)){
mean_n_rxxi <- mean(n_rxxi, na.rm = TRUE)
var_e_rxxi <- var_error_rel(rel = rxxi_mean, n = n_rxxi, rel_type = rxxi_type, k_items = k_items_rxxi)
var_e_rxxi <- wt_mean(x = var_e_rxxi, wt = n_rxxi)
var_e_qxi <- var_error_q(q = qxi_mean, n = n_rxxi, rel_type = rxxi_type, k_items = k_items_rxxi)
var_e_qxi <- wt_mean(x = var_e_qxi, wt = n_rxxi)
}else{
mean_n_rxxi <- NULL
var_e_rxxi <- var_e_qxi <- 0
}
rxxi_consistency <- convert_reltype2consistency(rel_type = rxxi_type)
if(any(rxxi_consistency)){
rxxi_c <- .replace_null(x = rxxi[rxxi_consistency])
wt_rxxi_c <- .replace_null(x = wt_rxxi[rxxi_consistency])
n_rxxi_c <- .replace_null(x = n_rxxi[rxxi_consistency])
qxi_mean_c <- art_mean(art_vec = rxxi_c^.5, wt_vec = wt_rxxi_c)
rxxi_mean_c <- art_mean(art_vec = rxxi_c, wt_vec = wt_rxxi_c)
qxi_var_c <- art_var(art_vec = rxxi_c^.5, wt_vec = wt_rxxi_c, var_unbiased = var_unbiased)
rxxi_var_c <- art_var(art_vec = rxxi_c, wt_vec = wt_rxxi_c, var_unbiased = var_unbiased)
if(!is.null(n_rxxi_c)){
mean_n_rxxi_c <- mean(n_rxxi_c, na.rm = TRUE)
rxxi_type_c <- .replace_null(x = rxxi_type[rxxi_consistency])
k_items_rxxi_c <- .replace_null(x = k_items_rxxi[rxxi_consistency])
var_e_rxxi_c <- var_error_rel(rel = rxxi_mean_c, n = n_rxxi_c, rel_type = rxxi_type_c, k_items = k_items_rxxi_c)
var_e_rxxi_c <- wt_mean(x = var_e_rxxi_c, wt = n_rxxi_c)
var_e_qxi_c <- var_error_q(q = qxi_mean_c, n = n_rxxi_c, rel_type = rxxi_type_c, k_items = k_items_rxxi_c)
var_e_qxi_c <- wt_mean(x = var_e_qxi_c, wt = n_rxxi_c)
}else{
mean_n_rxxi_c <- NULL
var_e_rxxi_c <- var_e_qxi_c <- 0
}
}else{
qxi_mean_c <- rxxi_mean_c <- qxi_var_c <- rxxi_var_c <- NULL
rxxi_c <- wt_rxxi_c <- NULL
var_e_rxxi_c <- var_e_qxi_c <- NULL
}
if(any(!rxxi_consistency)){
rxxi_m <- .replace_null(x = rxxi[!rxxi_consistency])
wt_rxxi_m <- .replace_null(x = wt_rxxi[!rxxi_consistency])
n_rxxi_m <- .replace_null(x = n_rxxi[!rxxi_consistency])
qxi_mean_m <- art_mean(art_vec = rxxi_m^.5, wt_vec = wt_rxxi_m)
rxxi_mean_m <- art_mean(art_vec = rxxi_m, wt_vec = wt_rxxi_m)
qxi_var_m <- art_var(art_vec = rxxi_m^.5, wt_vec = wt_rxxi_m, var_unbiased = var_unbiased)
rxxi_var_m <- art_var(art_vec = rxxi_m, wt_vec = wt_rxxi_m, var_unbiased = var_unbiased)
if(!is.null(n_rxxi_m)){
mean_n_rxxi_m <- mean(n_rxxi_m, na.rm = TRUE)
rxxi_type_m <- .replace_null(x = rxxi_type[!rxxi_consistency])
k_items_rxxi_m <- .replace_null(x = k_items_rxxi[!rxxi_consistency])
var_e_rxxi_m <- var_error_rel(rel = rxxi_mean_m, n = n_rxxi_m, rel_type = rxxi_type_m, k_items = k_items_rxxi_m)
var_e_rxxi_m <- wt_mean(x = var_e_rxxi_m, wt = n_rxxi_m)
var_e_qxi_m <- var_error_q(q = qxi_mean_m, n = n_rxxi_m, rel_type = rxxi_type_m, k_items = k_items_rxxi_m)
var_e_qxi_m <- wt_mean(x = var_e_qxi_m, wt = n_rxxi_m)
}else{
mean_n_rxxi_m <- NULL
var_e_rxxi_m <- var_e_qxi_m <- 0
}
}else{
qxi_mean_m <- rxxi_mean_m <- qxi_var_m <- rxxi_var_m <- NULL
rxxi_m <- wt_rxxi_m <- NULL
var_e_qxi_m <- var_e_rxxi_m <- NULL
}
}else{
qxi_mean_c <- rxxi_mean_c <- qxi_var_c <- rxxi_var_c <- NULL
qxi_mean_m <- rxxi_mean_m <- qxi_var_m <- rxxi_var_m <- NULL
rxxi_c <- wt_rxxi_c <- NULL
rxxi_m <- wt_rxxi_m <- NULL
var_e_rxxi <- var_e_rxxi_c <- var_e_rxxi_m <- NULL
var_e_qxi <- var_e_qxi_c <- var_e_qxi_m <- NULL
}
if(!is.null(ni_ux)) if(all(is.na(ni_ux))) ni_ux <- NULL
if(!is.null(na_ux)) if(all(is.na(na_ux))) na_ux <- NULL
if(!is.null(ni_ux)){
if(is.null(na_ux)) na_ux <- rep(NA, length(ni_ux))
if(is.null(dep_sds_ux_obs)) dep_sds_ux_obs <- rep(FALSE, length(dep_sds_ux_obs))
mean_ni_ux <- mean(ni_ux, na.rm = TRUE)
var_e_ux <- var_error_u(u = ux_mean, ni = ni_ux, na = na_ux, dependent_sds = dep_sds_ux_obs)
var_e_ux <- wt_mean(x = var_e_ux, wt = ni_ux)
}else{
mean_ni_ux <- NULL
var_e_ux <- NA
}
if(!is.null(ni_ut)) if(all(is.na(ni_ut))) ni_ut <- NULL
if(!is.null(na_ut)) if(all(is.na(na_ut))) na_ut <- NULL
if(!is.null(ni_ut)){
if(is.null(na_ut)) na_ut <- rep(NA, length(ni_ut))
if(is.null(dep_sds_ut_obs)) dep_sds_ut_obs <- rep(FALSE, length(dep_sds_ut_obs))
mean_ni_ut <- mean(ni_ut, na.rm = TRUE)
var_e_ut <- var_error_u(u = ut_mean, ni = ni_ut, na = na_ut, dependent_sds = dep_sds_ut_obs)
var_e_ut <- wt_mean(x = var_e_ut, wt = ni_ut)
}else{
mean_ni_ut <- NULL
var_e_ut <- NA
}
.arglist <- list(rxxa = rxxa,
n_rxxa = n_rxxa,
wt_rxxa = wt_rxxa,
rxxa_type = rxxa_type,
qxa_mean_c = qxa_mean_c,
rxxa_mean_c = rxxa_mean_c,
qxa_var_c = qxa_var_c,
rxxa_var_c = rxxa_var_c,
qxa_mean_m = qxa_mean_m,
rxxa_mean_m = rxxa_mean_m,
qxa_var_m = qxa_var_m,
rxxa_var_m = rxxa_var_m,
qxa_mean = qxa_mean,
rxxa_mean = rxxa_mean,
qxa_var = qxa_var,
rxxa_var = rxxa_var,
rxxa_c = rxxa_c,
wt_rxxa_c = wt_rxxa_c,
rxxa_m = rxxa_m,
wt_rxxa_m = wt_rxxa_m,
var_e_rxxa = var_e_rxxa,
var_e_rxxa_c = var_e_rxxa_c,
var_e_rxxa_m = var_e_rxxa_m,
var_e_qxa = var_e_qxa,
var_e_qxa_c = var_e_qxa_c,
var_e_qxa_m = var_e_qxa_m,
rxxi = rxxi,
n_rxxi = n_rxxi,
wt_rxxi = wt_rxxi,
rxxi_type = rxxi_type,
qxi_mean_c = qxi_mean_c,
rxxi_mean_c = rxxi_mean_c,
qxi_var_c = qxi_var_c,
rxxi_var_c = rxxi_var_c,
qxi_mean_m = qxi_mean_m,
rxxi_mean_m = rxxi_mean_m,
qxi_var_m = qxi_var_m,
rxxi_var_m = rxxi_var_m,
qxi_mean = qxi_mean,
rxxi_mean = rxxi_mean,
qxi_var = qxi_var,
rxxi_var = rxxi_var,
rxxi_c = rxxi_c,
wt_rxxi_c = wt_rxxi_c,
rxxi_m = rxxi_m,
wt_rxxi_m = wt_rxxi_m,
var_e_rxxi = var_e_rxxi,
var_e_rxxi_c = var_e_rxxi_c,
var_e_rxxi_m = var_e_rxxi_m,
var_e_qxi = var_e_qxi,
var_e_qxi_c = var_e_qxi_c,
var_e_qxi_m = var_e_qxi_m,
ux = ux,
ni_ux = ni_ux,
wt_ux = wt_ux,
ux_mean = ux_mean,
mean_ni_ux = mean_ni_ux,
var_e_ux = var_e_ux,
ut = ut,
ni_ut = ni_ut,
wt_ut = wt_ut,
ut_mean = ut_mean,
mean_ni_ut = mean_ni_ut,
var_e_ut = var_e_ut)
est_summaries <- function(rxxa, n_rxxa, wt_rxxa, rxxa_type,
qxa_mean, rxxa_mean,
qxa_var, rxxa_var,
var_e_rxxa, var_e_qxa,
rxxa_c, wt_rxxa_c,
qxa_mean_c, rxxa_mean_c,
qxa_var_c, rxxa_var_c,
var_e_rxxa_c, var_e_qxa_c,
rxxa_m, wt_rxxa_m,
qxa_mean_m, rxxa_mean_m,
qxa_var_m, rxxa_var_m,
var_e_rxxa_m, var_e_qxa_m,
rxxi, n_rxxi, wt_rxxi, rxxi_type,
qxi_mean, rxxi_mean,
qxi_var, rxxi_var,
var_e_rxxi, var_e_qxi,
rxxi_c, wt_rxxi_c,
qxi_mean_c, rxxi_mean_c,
qxi_var_c, rxxi_var_c,
var_e_rxxi_c, var_e_qxi_c,
rxxi_m, wt_rxxi_m,
qxi_mean_m, rxxi_mean_m,
qxi_var_m, rxxi_var_m,
var_e_rxxi_m, var_e_qxi_m,
ux, ni_ux, wt_ux,
ux_mean, mean_ni_ux, var_e_ux,
ut, ni_ut, wt_ut,
ut_mean, mean_ni_ut, var_e_ut,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE){
ux_wt <- sum(wt_ux)
ut_wt <- sum(wt_ut)
p_ux <- ux_wt / (ux_wt + ut_wt)
p_ut <- ut_wt / (ux_wt + ut_wt)
rxxa_wt <- sum(wt_rxxa)
rxxa_wt_c <- sum(wt_rxxa_c)
rxxa_wt_m <- sum(wt_rxxa_m)
rxxi_wt <- sum(wt_rxxi)
rxxi_wt_c <- sum(wt_rxxi_c)
rxxi_wt_m <- sum(wt_rxxi_m)
p_rxxa <- rxxa_wt / (rxxi_wt + rxxa_wt)
p_rxxi <- rxxi_wt / (rxxi_wt + rxxa_wt)
if(estimate_rxxa){
if(!is.null(ux_mean) & !is.null(rxxi)){
rxxa_ux_irr <- estimate_rxxa(rxxi = rxxi, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
if(!is.null(var_e_rxxi)){
var_e_rxxa_ux_irr <- estimate_var_rxxa(rxxi = rxxi_mean, var_rxxi = var_e_rxxi, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
var_e_qxa_ux_irr <- estimate_var_qxa(qxi = qxi_mean, var_qxi = var_e_qxi, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
}else{
var_e_rxxa_ux_irr <- var_e_qxa_ux_irr <- NULL
}
wt_rxxa_ux <- wt_rxxi * p_ux
if(!is.null(rxxi_c)){
rxxa_ux_drr_c <- estimate_rxxa(rxxi = rxxi_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
if(!is.null(var_e_rxxi_c)){
var_e_rxxa_ux_drr_c <- estimate_var_rxxa(rxxi = rxxi_mean_c, var_rxxi = var_e_rxxi_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
var_e_qxa_ux_drr_c <- estimate_var_qxa(qxi = qxi_mean_c, var_qxi = var_e_qxi_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "internal_consistency")
}else{
var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
}
wt_rxxa_ux_c <- wt_rxxi_c * p_ux
}else{
rxxa_ux_drr_c <- wt_rxxa_ux_c <- var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
}
if(!is.null(rxxi_m)){
rxxa_ux_drr_m <- estimate_rxxa(rxxi = rxxi_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
if(!is.null(var_e_rxxi_m)){
var_e_rxxa_ux_drr_m <- estimate_var_rxxa(rxxi = rxxi_mean_m, var_rxxi = var_e_rxxi_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
var_e_qxa_ux_drr_m <- estimate_var_qxa(qxi = qxi_mean_m, var_qxi = var_e_qxi_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "multiple_administrations")
}else{
var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
}
wt_rxxa_ux_m <- wt_rxxi_m * p_ux
}else{
rxxa_ux_drr_m <- wt_rxxa_ux_m <- var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
}
}else{
rxxa_ux_irr <- wt_rxxa_ux <- var_e_rxxa_ux_irr <- var_e_qxa_ux_irr <- NULL
rxxa_ux_drr_c <- wt_rxxa_ux_c <- var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
rxxa_ux_drr_m <- wt_rxxa_ux_m <- var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
}
if(!is.null(ut_mean) & !is.null(rxxi)){
rxxa_ut <- estimate_rxxa(rxxi = rxxi, ux = ut_mean, ux_observed = FALSE)
if(!is.null(var_e_rxxi)){
var_e_rxxa_ut <- estimate_var_rxxa(rxxi = rxxi_mean, var_rxxi = var_e_rxxi, ux = ut_mean, ux_observed = FALSE)
var_e_qxa_ut <- estimate_var_qxa(qxi = qxi_mean, var_qxi = var_e_qxi, ux = ut_mean, ux_observed = FALSE)
}else{
var_e_rxxa_ut <- var_e_qxa_ut <- NULL
}
wt_rxxa_ut <- wt_rxxi * p_ut
if(!is.null(rxxi_c)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxi_mean_c, rxx_restricted = TRUE)
rxxa_ut_drr_c <- estimate_rxxa(rxxi = rxxi_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
if(!is.null(var_e_rxxi_c)){
var_e_rxxa_ut_drr_c <- estimate_var_rxxa(rxxi = rxxi_mean_c, var_rxxi = var_e_rxxi_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
var_e_qxa_ut_drr_c <- estimate_var_qxa(qxi = qxi_mean_c, var_qxi = var_e_qxi_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "internal_consistency")
}else{
var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
}
wt_rxxa_ut_c <- wt_rxxi_c * p_ut
}else{
rxxa_ut_drr_c <- wt_rxxa_ut_c <- var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
}
if(!is.null(rxxi_m)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxi_mean_m, rxx_restricted = TRUE)
rxxa_ut_drr_m <- estimate_rxxa(rxxi = rxxi_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
if(!is.null(var_e_rxxi_m)){
var_e_rxxa_ut_drr_m <- estimate_var_rxxa(rxxi = rxxi_mean_m, var_rxxi = var_e_rxxi_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
var_e_qxa_ut_drr_m <- estimate_var_qxa(qxi = qxi_mean_m, var_qxi = var_e_qxi_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "multiple_administrations")
}else{
var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
wt_rxxa_ut_m <- wt_rxxi_m * p_ut
}else{
rxxa_ut_drr_m <- wt_rxxa_ut_m <- var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
}else{
rxxa_ut <- wt_rxxa_ut <- var_e_rxxa_ut <- var_e_qxa_ut <- NULL
rxxa_ut_drr_c <- wt_rxxa_ut_c <- var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
rxxa_ut_drr_m <- wt_rxxa_ut_m <- var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
}else{
rxxa_ux_irr <- wt_rxxa_ux <- var_e_rxxa_ux_irr <- var_e_qxa_ux_irr <- NULL
rxxa_ux_drr_c <- wt_rxxa_ux_c <- var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
rxxa_ux_drr_m <- wt_rxxa_ux_m <- var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
rxxa_ut <- wt_rxxa_ut <- var_e_rxxa_ut <- var_e_qxa_ut <- NULL
rxxa_ut_drr_c <- wt_rxxa_ut_c <- var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
rxxa_ut_drr_m <- wt_rxxa_ut_m <- var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
if(estimate_rxxi){
if(!is.null(ux_mean) & !is.null(rxxa)){
rxxi_ux_irr <- estimate_rxxi(rxxa = rxxa, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
if(!is.null(var_e_rxxa)){
var_e_rxxi_ux_irr <- estimate_var_rxxi(rxxa = rxxa_mean, var_rxxa = var_e_rxxa, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
var_e_qxi_ux_irr <- estimate_var_qxi(qxa = qxa_mean, var_qxa = var_e_qxa, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
}else{
var_e_rxxi_ux_irr <- var_e_qxi_ux_irr <- NULL
}
wt_rxxi_ux <- wt_rxxa * p_ux
if(!is.null(rxxa_c)){
rxxi_ux_drr_c <- estimate_rxxi(rxxa = rxxa_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
if(!is.null(var_e_rxxa_c)){
var_e_rxxi_ux_drr_c <- estimate_var_rxxi(rxxa = rxxa_mean_c, var_rxxa = var_e_rxxa_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
var_e_qxi_ux_drr_c <- estimate_var_qxi(qxa = qxa_mean_c, var_qxa = var_e_qxa_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "internal_consistency")
}else{
var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
}
wt_rxxi_ux_c <- wt_rxxa_c * p_ux
}else{
rxxi_ux_drr_c <- wt_rxxi_ux_c <- var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
}
if(!is.null(rxxa_m)){
rxxi_ux_drr_m <- estimate_rxxi(rxxa = rxxa_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
if(!is.null(var_e_rxxa_m)){
var_e_rxxi_ux_drr_m <- estimate_var_rxxi(rxxa = rxxa_mean_m, var_rxxa = var_e_rxxa_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
var_e_qxi_ux_drr_m <- estimate_var_qxi(qxa = qxa_mean_m, var_qxa = var_e_qxa_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "multiple_administrations")
}else{
var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
}
wt_rxxi_ux_m <- wt_rxxa_m * p_ux
}else{
rxxi_ux_drr_m <- wt_rxxi_ux_m <- var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
}
}else{
rxxi_ux_irr <- wt_rxxi_ux <- var_e_rxxi_ux_irr <- var_e_qxi_ux_irr <- NULL
rxxi_ux_drr_c <- wt_rxxi_ux_c <- var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
rxxi_ux_drr_m <- wt_rxxi_ux_m <- var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
}
if(!is.null(ut_mean) & !is.null(rxxa)){
rxxi_ut <- estimate_rxxi(rxxa = rxxa, ux = ut_mean, ux_observed = FALSE)
if(!is.null(var_e_rxxa)){
var_e_rxxi_ut <- estimate_var_rxxi(rxxa = rxxa_mean, var_rxxa = var_e_rxxa, ux = ut_mean, ux_observed = FALSE)
var_e_qxi_ut <- estimate_var_qxi(qxa = qxa_mean, var_qxa = var_e_qxa, ux = ut_mean, ux_observed = FALSE)
}else{
var_e_rxxi_ut <- var_e_qxi_ut <- NULL
}
wt_rxxi_ut <- wt_rxxa * p_ut
if(!is.null(rxxa_c)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxa_mean_c, rxx_restricted = FALSE)
rxxi_ut_drr_c <- estimate_rxxi(rxxa = rxxa_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
if(!is.null(var_e_rxxa_c)){
var_e_rxxi_ut_drr_c <- estimate_var_rxxi(rxxa = rxxa_mean_c, var_rxxa = var_e_rxxa_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
var_e_qxi_ut_drr_c <- estimate_var_qxi(qxa = qxa_mean_c, var_qxa = var_e_qxa_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "internal_consistency")
}else{
var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
}
wt_rxxi_ut_c <- wt_rxxa_c * p_ut
}else{
rxxi_ut_drr_c <- wt_rxxi_ut_c <- var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
}
if(!is.null(rxxa_m)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxa_mean_m, rxx_restricted = FALSE)
rxxi_ut_drr_m <- estimate_rxxi(rxxa = rxxa_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
if(!is.null(var_e_rxxa_m)){
var_e_rxxi_ut_drr_m <- estimate_var_rxxi(rxxa = rxxa_mean_m, var_rxxa = var_e_rxxa_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
var_e_qxi_ut_drr_m <- estimate_var_qxi(qxa = qxa_mean_m, var_qxa = var_e_qxa_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "multiple_administrations")
}else{
var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
wt_rxxi_ut_m <- wt_rxxa_m * p_ut
}else{
rxxi_ut_drr_m <- wt_rxxi_ut_m <- var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
}else{
rxxi_ut <- wt_rxxi_ut <- var_e_rxxi_ut <- var_e_qxi_ut <- NULL
rxxi_ut_drr_c <- wt_rxxi_ut_c <- var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
rxxi_ut_drr_m <- wt_rxxi_ut_m <- var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
}else{
rxxi_ux_irr <- wt_rxxi_ux <- var_e_rxxi_ux_irr <- var_e_qxi_ux_irr <- NULL
rxxi_ux_drr_c <- wt_rxxi_ux_c <- var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
rxxi_ux_drr_m <- wt_rxxi_ux_m <- var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
rxxi_ut <- wt_rxxi_ut <- var_e_rxxi_ut <- var_e_qxi_ut <- NULL
rxxi_ut_drr_c <- wt_rxxi_ut_c <- var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
rxxi_ut_drr_m <- wt_rxxi_ut_m <- var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
if(estimate_ut){
if(!is.null(rxxa_mean) & !is.null(ux)){
ut_rxxa <- estimate_ut(ux = ux, rxx = rxxa_mean, rxx_restricted = FALSE)
if(!is.null(var_e_ux)){
var_e_ut_rxxa <- estimate_var_ut(ux = ux_mean, var_ux = var_e_ux, rxx = rxxa_mean, rxx_restricted = FALSE)
}else{
var_e_ut_rxxa <- NULL
}
wt_ut_rxxa <- wt_ux * p_rxxa
}else{
ut_rxxa <- wt_ut_rxxa <- var_e_ut_rxxa <- NULL
}
if(!is.null(rxxi_mean) & !is.null(ux)){
ut_rxxi <- estimate_ut(ux = ux, rxx = rxxi_mean, rxx_restricted = TRUE)
if(!is.null(var_e_ux)){
var_e_ut_rxxi <- estimate_var_ut(ux = ux_mean, var_ux = var_e_ux, rxx = rxxi_mean, rxx_restricted = TRUE)
}else{
var_e_ut_rxxi <- NULL
}
wt_ut_rxxi <- wt_ux * p_rxxi
}else{
ut_rxxi <- wt_ut_rxxi <- var_e_ut_rxxi <- NULL
}
}else{
ut_rxxa <- wt_ut_rxxa <- var_e_ut_rxxa <- NULL
ut_rxxi <- wt_ut_rxxi <- var_e_ut_rxxi <- NULL
}
if(estimate_ux){
if(!is.null(rxxa_mean) & !is.null(ut)){
ux_rxxa <- estimate_ux(ut = ut, rxx = rxxa_mean, rxx_restricted = FALSE)
if(!is.null(var_e_ut)){
var_e_ux_rxxa <- estimate_var_ux(ut = ut_mean, var_ut = var_e_ut, rxx = rxxa_mean, rxx_restricted = FALSE)
}else{
var_e_ux_rxxa <- NULL
}
wt_ux_rxxa <- wt_ut * p_rxxa
}else{
ux_rxxa <- wt_ux_rxxa <- var_e_ux_rxxa <- NULL
}
if(!is.null(rxxi_mean) & !is.null(ut)){
ux_rxxi <- estimate_ux(ut = ut, rxx = rxxi_mean, rxx_restricted = TRUE)
if(!is.null(var_e_ut)){
var_e_ux_rxxi <- estimate_var_ux(ut = ut_mean, var_ut = var_e_ut, rxx = rxxi_mean, rxx_restricted = TRUE)
}else{
var_e_ux_rxxi <- NULL
}
wt_ux_rxxi <- wt_ut * p_rxxi
}else{
ux_rxxi <- wt_ux_rxxi <- var_e_ux_rxxi <- NULL
}
}else{
ux_rxxa <- wt_ux_rxxa <- var_e_ux_rxxa <- NULL
ux_rxxi <- wt_ux_rxxi <- var_e_ux_rxxi <- NULL
}
rxxa_vec_irr <- c(rxxa, rxxa_ux_irr, rxxa_ut)
rxxa_vec_drr <- c(rxxa, rxxa_ux_drr_c, rxxa_ux_drr_m,
rxxa_ut_drr_c, rxxa_ut_drr_m)
wt_rxxa_irr <- c(wt_rxxa, wt_rxxa_ux, wt_rxxa_ut)
wt_rxxa_drr <- c(wt_rxxa, wt_rxxa_ux_c, wt_rxxa_ux_m,
wt_rxxa_ut_c, wt_rxxa_ut_m)
rxxi_vec_irr <- c(rxxi, rxxi_ux_irr, rxxi_ut)
rxxi_vec_drr <- c(rxxi, rxxi_ux_drr_c, rxxi_ux_drr_m,
rxxi_ut_drr_c, rxxi_ut_drr_m)
wt_rxxi_irr <- c(wt_rxxi, wt_rxxi_ux, wt_rxxi_ut)
wt_rxxi_drr <- c(wt_rxxi, wt_rxxi_ux_c, wt_rxxi_ux_m,
wt_rxxi_ut_c, wt_rxxi_ut_m)
.ux <- ux
.wt_ux <- wt_ux
ux <- c(ux, ux_rxxa, ux_rxxi)
wt_ux <- c(wt_ux, wt_ux_rxxa, wt_ux_rxxi)
.ut <- ut
.wt_ut <- wt_ut
ut <- c(ut, ut_rxxa, ut_rxxi)
wt_ut <- c(wt_ut, wt_ut_rxxa, wt_ut_rxxi)
mean_qxi_irr <- art_mean(art_vec = rxxi_vec_irr^.5, wt_vec = wt_rxxi_irr, null_value = NA)
mean_qxi_drr <- art_mean(art_vec = rxxi_vec_drr^.5, wt_vec = wt_rxxi_drr, null_value = NA)
mean_qxa_irr <- art_mean(art_vec = rxxa_vec_irr^.5, wt_vec = wt_rxxa_irr, null_value = NA)
mean_qxa_drr <- art_mean(art_vec = rxxa_vec_drr^.5, wt_vec = wt_rxxa_drr, null_value = NA)
mean_rxxi_irr <- art_mean(art_vec = rxxi_vec_irr, wt_vec = wt_rxxi_irr, null_value = NA)
mean_rxxi_drr <- art_mean(art_vec = rxxi_vec_drr, wt_vec = wt_rxxi_drr, null_value = NA)
mean_rxxa_irr <- art_mean(art_vec = rxxa_vec_irr, wt_vec = wt_rxxa_irr, null_value = NA)
mean_rxxa_drr <- art_mean(art_vec = rxxa_vec_drr, wt_vec = wt_rxxa_drr, null_value = NA)
mean_ux <- art_mean(art_vec = ux, wt_vec = wt_ux, null_value = NA)
mean_ut <- art_mean(art_vec = ut, wt_vec = wt_ut, null_value = NA)
var_qxi_irr <- art_var(art_vec = rxxi_vec_irr^.5, wt_vec = wt_rxxi_irr, null_value = NA, var_unbiased = var_unbiased)
var_qxi_drr <- art_var(art_vec = rxxi_vec_drr^.5, wt_vec = wt_rxxi_drr, null_value = NA, var_unbiased = var_unbiased)
var_qxa_irr <- art_var(art_vec = rxxa_vec_irr^.5, wt_vec = wt_rxxa_irr, null_value = NA, var_unbiased = var_unbiased)
var_qxa_drr <- art_var(art_vec = rxxa_vec_drr^.5, wt_vec = wt_rxxa_drr, null_value = NA, var_unbiased = var_unbiased)
var_rxxi_irr <- art_var(art_vec = rxxi_vec_irr, wt_vec = wt_rxxi_irr, null_value = NA, var_unbiased = var_unbiased)
var_rxxi_drr <- art_var(art_vec = rxxi_vec_drr, wt_vec = wt_rxxi_drr, null_value = NA, var_unbiased = var_unbiased)
var_rxxa_irr <- art_var(art_vec = rxxa_vec_irr, wt_vec = wt_rxxa_irr, null_value = NA, var_unbiased = var_unbiased)
var_rxxa_drr <- art_var(art_vec = rxxa_vec_drr, wt_vec = wt_rxxa_drr, null_value = NA, var_unbiased = var_unbiased)
var_ux <- art_var(art_vec = ux, wt_vec = wt_ux, null_value = NA, var_unbiased = var_unbiased)
var_ut <- art_var(art_vec = ut, wt_vec = wt_ut, null_value = NA, var_unbiased = var_unbiased)
.sum_weights <- function(x) if(length(x) == 0){NULL}else{sum(x)}
wtsum_vec_rxxa_irr <- unlist(lapply(list(wt_rxxa, wt_rxxa_ux, wt_rxxa_ut), .sum_weights))
wtsum_vec_rxxa_drr <- unlist(lapply(list(wt_rxxa, wt_rxxa_ux_c, wt_rxxa_ux_m,
wt_rxxa_ut_c, wt_rxxa_ut_m), .sum_weights))
wtsum_vec_rxxi_irr <- unlist(lapply(list(wt_rxxi, wt_rxxi_ux, wt_rxxi_ut), .sum_weights))
wtsum_vec_rxxi_drr <- unlist(lapply(list(wt_rxxi, wt_rxxi_ux_c, wt_rxxi_ux_m,
wt_rxxi_ut_c, wt_rxxi_ut_m), .sum_weights))
wtsum_vec_ux <- unlist(lapply(list(wt_ux, wt_ux_rxxa, wt_ux_rxxi), .sum_weights))
wtsum_vec_ut <- unlist(lapply(list(wt_ut, wt_ut_rxxa, wt_ut_rxxi), .sum_weights))
vare_vec_qxi_irr <- c(var_e_qxi, var_e_qxi_ux_irr, var_e_qxi_ut)
vare_vec_qxi_drr <- c(var_e_qxi, var_e_qxi_ux_drr_c, var_e_qxi_ux_drr_m,
var_e_qxi_ut_drr_c, var_e_qxi_ut_drr_m)
vare_vec_qxa_irr <- c(var_e_qxa, var_e_qxa_ux_irr, var_e_qxa_ut)
vare_vec_qxa_drr <- c(var_e_qxa, var_e_qxa_ux_drr_c, var_e_qxa_ux_drr_m,
var_e_qxa_ut_drr_c, var_e_qxa_ut_drr_m)
vare_vec_rxxi_irr <- c(var_e_rxxi, var_e_rxxi_ux_irr, var_e_rxxi_ut)
vare_vec_rxxi_drr <- c(var_e_rxxi, var_e_rxxi_ux_drr_c, var_e_rxxi_ux_drr_m,
var_e_rxxi_ut_drr_c, var_e_rxxi_ut_drr_m)
vare_vec_rxxa_irr <- c(var_e_rxxa, var_e_rxxa_ux_irr, var_e_rxxa_ut)
vare_vec_rxxa_drr <- c(var_e_rxxa, var_e_rxxa_ux_drr_c, var_e_rxxa_ux_drr_m,
var_e_rxxa_ut_drr_c, var_e_rxxa_ut_drr_m)
vare_vec_ux <- c(var_e_ux, var_e_ux_rxxa, var_e_ux_rxxi)
vare_vec_ut <- c(var_e_ut, var_e_ut_rxxa, var_e_ut_rxxi)
vare_qxi_irr <- art_mean(art_vec = vare_vec_qxi_irr, wt_vec = wtsum_vec_rxxi_irr, null_value = NA)
vare_qxi_drr <- art_mean(art_vec = vare_vec_qxi_drr, wt_vec = wtsum_vec_rxxi_drr, null_value = NA)
vare_qxa_irr <- art_mean(art_vec = vare_vec_qxa_irr, wt_vec = wtsum_vec_rxxa_irr, null_value = NA)
vare_qxa_drr <- art_mean(art_vec = vare_vec_qxa_drr, wt_vec = wtsum_vec_rxxa_drr, null_value = NA)
vare_rxxi_irr <- art_mean(art_vec = vare_vec_rxxi_irr, wt_vec = wtsum_vec_rxxi_irr, null_value = NA)
vare_rxxi_drr <- art_mean(art_vec = vare_vec_rxxi_drr, wt_vec = wtsum_vec_rxxi_drr, null_value = NA)
vare_rxxa_irr <- art_mean(art_vec = vare_vec_rxxa_irr, wt_vec = wtsum_vec_rxxa_irr, null_value = NA)
vare_rxxa_drr <- art_mean(art_vec = vare_vec_rxxa_drr, wt_vec = wtsum_vec_rxxa_drr, null_value = NA)
vare_ux <- art_mean(art_vec = vare_vec_ux, wt_vec = wtsum_vec_ux, null_value = NA)
vare_ut <- art_mean(art_vec = vare_vec_ut, wt_vec = wtsum_vec_ut, null_value = NA)
name_vec <- c("qxi_irr", "qxi_drr",
"qxa_irr", "qxa_drr",
"rxxi_irr", "rxxi_drr",
"rxxa_irr", "rxxa_drr",
"ux", "ut")
k_vec <- c(length(rxxi), length(rxxi), length(rxxa), length(rxxa),
length(rxxi), length(rxxi), length(rxxa), length(rxxa),
length(.ux), length(.ut))
N_vec <- c(sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE),
sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE),
sum(ni_ux, na.rm = TRUE), sum(ni_ut, na.rm = TRUE))
if(estimate_rxxa){
k_vec <- k_vec + c(0, 0, length(rxxi), length(rxxi),
0, 0, length(rxxi), length(rxxi),
0, 0)
N_vec <- N_vec + c(0, 0, sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE),
0, 0, sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE),
0, 0)
}
if(estimate_rxxi){
k_vec <- k_vec + c(length(rxxa), length(rxxa), 0, 0,
length(rxxa), length(rxxa), 0, 0,
0, 0)
N_vec <- N_vec + c(sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), 0, 0,
sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), 0, 0,
0, 0)
}
if(estimate_ux){
k_vec <- k_vec + c(rep(0, 8),
length(.ut), 0)
N_vec <- N_vec + c(rep(0, 8),
sum(ni_ut, na.rm = TRUE), 0)
}
if(estimate_ut){
k_vec <- k_vec + c(rep(0, 8),
0, length(.ux))
N_vec <- N_vec + c(rep(0, 8),
0, sum(ni_ux, na.rm = TRUE))
}
mean_vec <- c(mean_qxi_irr, mean_qxi_drr,
mean_qxa_irr, mean_qxa_drr,
mean_rxxi_irr, mean_rxxi_drr,
mean_rxxa_irr, mean_rxxa_drr,
mean_ux, mean_ut)
var_vec <- c(var_qxi_irr, var_qxi_drr,
var_qxa_irr, var_qxa_drr,
var_rxxi_irr, var_rxxi_drr,
var_rxxa_irr, var_rxxa_drr,
var_ux, var_ut)
vare_vec <- c(vare_qxi_irr, vare_qxi_drr,
vare_qxa_irr, vare_qxa_drr,
vare_rxxi_irr, vare_rxxi_drr,
vare_rxxa_irr, vare_rxxa_drr,
vare_ux, vare_ut)
.vare_vec <- vare_vec
.vare_vec[is.na(.vare_vec)] <- 0
var_res_vec <- var_vec - .vare_vec
var_res_vec[var_res_vec < 0] <- 0
rel_vec <- setNames(var_res_vec / var_vec, name_vec)
rel_vec[is.na(rel_vec)] <- 0
summary_mat <- cbind(k = k_vec, N = N_vec,
mean = mean_vec,
var = var_vec, var_e = vare_vec, var_res = var_res_vec,
sd = var_vec^.5, sd_e = vare_vec^.5, sd_res = var_res_vec^.5,
reliability = rel_vec)
rownames(summary_mat) <- name_vec
summary_mat <- summary_mat[c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut"),]
summary_mat[is.na(summary_mat[,"mean"]),] <- NA
out <- list(qxa_irr = .create_ad_int(art_vec = rxxa_vec_irr^.5, wt_vec = wt_rxxa_irr),
qxa_drr = .create_ad_int(art_vec = rxxa_vec_drr^.5, wt_vec = wt_rxxa_drr),
qxi_irr = .create_ad_int(art_vec = rxxi_vec_irr^.5, wt_vec = wt_rxxi_irr),
qxi_drr = .create_ad_int(art_vec = rxxi_vec_drr^.5, wt_vec = wt_rxxi_drr),
ux = .create_ad_int(art_vec = ux, wt_vec = wt_ux),
ut = .create_ad_int(art_vec = ut, wt_vec = wt_ut))
valid_rxxa_irr <- !is.null(rxxa_vec_irr) & length(rxxa_vec_irr) > 0
valid_rxxa_drr <- !is.null(rxxa_vec_drr) & length(rxxa_vec_drr) > 0
valid_rxxi_irr <- !is.null(rxxi_vec_irr) & length(rxxi_vec_irr) > 0
valid_rxxi_drr <- !is.null(rxxi_vec_drr) & length(rxxi_vec_drr) > 0
valid_ux <- !is.null(ux) & length(ux) > 0
valid_ut <- !is.null(ut) & length(ut) > 0
ad_contents <- c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr", "ux", "ut")[c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)]
if(sum(c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)) == 0) ad_contents <- "NULL"
attributes(out) <- append(attributes(out), list(summary = summary_mat, ad_contents = ad_contents))
class(out) <- c("ad_int_list", "list")
out
}
arglist <- append(.arglist,
list(estimate_rxxa = estimate_rxxa, estimate_rxxi = estimate_rxxi,
estimate_ux = estimate_ux, estimate_ut = estimate_ut))
arglist_raw <- append(.arglist,
list(estimate_rxxa = FALSE, estimate_rxxi = FALSE,
estimate_ux = FALSE, estimate_ut = FALSE))
ad_out <- do.call(est_summaries, args = arglist)
.attributes <- attributes(ad_out)
out <- tibble(Artifact = names(ad_out), Distribution = ad_out)
out_raw <- do.call(est_summaries, args = arglist_raw)
attributes(out) <- append(attributes(out),
list(summary = .attributes$summary,
ad_contents = .attributes$ad_contents,
summary_raw = attributes(out_raw)$summary,
ad_contents_raw = attributes(out_raw)$ad_contents,
inputs = inputs))
class(out) <- c("ad_int", class(out))
out
}
create_ad_tsa <- function(rxxi = NULL, n_rxxi = NULL, wt_rxxi = n_rxxi, rxxi_type = rep("alpha", length(rxxi)), k_items_rxxi = rep(NA, length(rxxi)),
mean_qxi = NULL, var_qxi = NULL, k_qxi = NULL, mean_n_qxi = NULL, qxi_dist_type = rep("alpha", length(mean_qxi)), mean_k_items_qxi = rep(NA, length(mean_qxi)),
mean_rxxi = NULL, var_rxxi = NULL, k_rxxi = NULL, mean_n_rxxi = NULL, rxxi_dist_type = rep("alpha", length(mean_rxxi)), mean_k_items_rxxi = rep(NA, length(mean_rxxi)),
rxxa = NULL, n_rxxa = NULL, wt_rxxa = n_rxxa, rxxa_type = rep("alpha", length(rxxa)), k_items_rxxa = rep(NA, length(rxxa)),
mean_qxa = NULL, var_qxa = NULL, k_qxa = NULL, mean_n_qxa = NULL, qxa_dist_type = rep("alpha", length(mean_qxa)), mean_k_items_qxa = rep(NA, length(mean_qxa)),
mean_rxxa = NULL, var_rxxa = NULL, k_rxxa = NULL, mean_n_rxxa = NULL, rxxa_dist_type = rep("alpha", length(mean_rxxa)), mean_k_items_rxxa = rep(NA, length(mean_rxxa)),
ux = NULL, ni_ux = NULL, na_ux = NULL, wt_ux = ni_ux, dep_sds_ux_obs = FALSE,
mean_ux = NULL, var_ux = NULL, k_ux = NULL, mean_ni_ux = NULL, mean_na_ux = NA, dep_sds_ux_spec = FALSE,
ut = NULL, ni_ut = NULL, na_ut = NULL, wt_ut = ni_ut, dep_sds_ut_obs = FALSE,
mean_ut = NULL, var_ut = NULL, k_ut = NULL, mean_ni_ut = NULL, mean_na_ut = NA, dep_sds_ut_spec = FALSE,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE,
var_unbiased = TRUE, ...){
if(length(rxxi) > 0){
if(length(n_rxxi) == 0){
n_rxxi <- rep(NA, length(rxxi))
if(length(wt_rxxi) == 0){
wt_rxxi <- rep(1, length(rxxi))
}else{
if(length(wt_rxxi) != length(rxxi))
stop("When wt_rxxi is not NULL, the lengths of rxxi and wt_rxxi must be equal", call. = FALSE)
}
}else{
if(length(n_rxxi) != length(rxxi))
stop("When n_rxxi is not NULL, the lengths of rxxi and n_rxxi must be equal", call. = FALSE)
if(length(wt_rxxi) == 0)
wt_rxxi <- n_rxxi
}
if(length(rxxi_type) == 0){
rxxi_type <- rep("alpha", length(rxxi))
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(rxxi_type) == 1)
rxxi_type <- rep(rxxi_type, length(rxxi))
if(length(rxxi_type) != length(rxxi))
stop("When rxxi_type is not length 1, the lengths of rxxi and rxxi_type must be equal", call. = FALSE)
}
if(length(k_items_rxxi) == 0){
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(k_items_rxxi) == 1)
k_items_rxxi <- rep(k_items_rxxi, length(rxxi))
if(length(k_items_rxxi) != length(rxxi))
stop("When k_items_rxxi is not length 1, the lengths of rxxi and k_items_rxxi must be equal", call. = FALSE)
}
}else{
n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(length(rxxa) > 0){
if(length(n_rxxa) == 0){
n_rxxa <- rep(NA, length(rxxa))
if(length(wt_rxxa) == 0){
wt_rxxa <- rep(1, length(rxxa))
}else{
if(length(wt_rxxa) != length(rxxa))
stop("When wt_rxxa is not NULL, the lengths of rxxa and wt_rxxa must be equal", call. = FALSE)
}
}else{
if(length(n_rxxa) != length(rxxa))
stop("When n_rxxa is not NULL, the lengths of rxxa and n_rxxa must be equal", call. = FALSE)
if(length(wt_rxxa) == 0)
wt_rxxa <- n_rxxa
}
if(length(rxxa_type) == 0){
rxxa_type <- rep("alpha", length(rxxa))
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(rxxa_type) == 1)
rxxa_type <- rep(rxxa_type, length(rxxa))
if(length(rxxa_type) != length(rxxa))
stop("When rxxa_type is not length 1, the lengths of rxxa and rxxa_type must be equal", call. = FALSE)
}
if(length(k_items_rxxa) == 0){
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(k_items_rxxa) == 1)
k_items_rxxa <- rep(k_items_rxxa, length(rxxa))
if(length(k_items_rxxa) != length(rxxa))
stop("When k_items_rxxa is not length 1, the lengths of rxxa and k_items_rxxa must be equal", call. = FALSE)
}
}else{
n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(length(ux) > 0){
if(length(ni_ux) == 0){
ni_ux <- rep(NA, length(ux))
if(length(wt_ux) == 0){
wt_ux <- rep(1, length(ux))
}else{
if(length(wt_ux) != length(ux))
stop("When wt_ux is not NULL, the lengths of ux and wt_ux must be equal", call. = FALSE)
}
}else{
if(length(ni_ux) != length(ux))
stop("When ni_ux is not NULL, the lengths of ux and ni_ux must be equal", call. = FALSE)
if(length(wt_ux) == 0)
wt_ux <- ni_ux
}
if(length(na_ux) == 0){
na_ux <- rep(NA, length(ux))
}else{
if(length(na_ux) != length(ux))
stop("When na_ux is not NULL, the lengths of ux and na_ux must be equal", call. = FALSE)
}
if(length(dep_sds_ux_obs) == 0){
dep_sds_ux_obs <- rep(FALSE, length(ux))
}else{
if(length(dep_sds_ux_obs) == 1)
dep_sds_ux_obs <- rep(dep_sds_ux_obs, length(ux))
if(length(dep_sds_ux_obs) != length(ux))
stop("When dep_sds_ux_obs is not length 1, the lengths of ux and dep_sds_ux_obs must be equal", call. = FALSE)
}
}else{
ni_ux <- wt_ux <- na_ux <- dep_sds_ux_obs <- NULL
}
if(length(ut) > 0){
if(length(ni_ut) == 0){
ni_ut <- rep(NA, length(ut))
if(length(wt_ut) == 0){
wt_ut <- rep(1, length(ut))
}else{
if(length(wt_ut) != length(ut))
stop("When wt_ut is not NULL, the lengths of ut and wt_ut must be equal", call. = FALSE)
}
}else{
if(length(ni_ut) != length(ut))
stop("When ni_ut is not NULL, the lengths of ut and ni_ut must be equal", call. = FALSE)
if(length(wt_ut) == 0)
wt_ut <- ni_ut
}
if(length(na_ut) == 0){
na_ut <- rep(NA, length(ut))
}else{
if(length(na_ut) != length(ut))
stop("When na_ut is not NULL, the lengths of ut and na_ut must be equal", call. = FALSE)
}
if(length(dep_sds_ut_obs) == 0){
dep_sds_ut_obs <- rep(FALSE, length(ut))
}else{
if(length(dep_sds_ut_obs) == 1)
dep_sds_ut_obs <- rep(dep_sds_ut_obs, length(ut))
if(length(dep_sds_ut_obs) != length(ut))
stop("When dep_sds_ut_obs is not length 1, the lengths of ut and dep_sds_ut_obs must be equal", call. = FALSE)
}
}else{
ni_ut <- wt_ut <- na_ut <- dep_sds_ut_obs <- NULL
}
inputs <- list(rxxi = rxxi, n_rxxi = n_rxxi, wt_rxxi = wt_rxxi, rxxi_type = rxxi_type, k_items_rxxi = k_items_rxxi,
mean_qxi = mean_qxi, var_qxi = var_qxi, k_qxi = k_qxi, mean_n_qxi = mean_n_qxi, qxi_dist_type = qxi_dist_type, mean_k_items_qxi = mean_k_items_qxi,
mean_rxxi = mean_rxxi, var_rxxi = var_rxxi, k_rxxi = k_rxxi, mean_n_rxxi = mean_n_rxxi, rxxi_dist_type = rxxi_dist_type, mean_k_items_rxxi = mean_k_items_rxxi,
rxxa = rxxa, n_rxxa = n_rxxa, wt_rxxa = wt_rxxa, rxxa_type = rxxa_type, k_items_rxxa = k_items_rxxa,
mean_qxa = mean_qxa, var_qxa = var_qxa, k_qxa = k_qxa, mean_n_qxa = mean_n_qxa, qxa_dist_type = qxa_dist_type, mean_k_items_qxa = mean_k_items_qxa,
mean_rxxa = mean_rxxa, var_rxxa = var_rxxa, k_rxxa = k_rxxa, mean_n_rxxa = mean_n_rxxa, rxxa_dist_type = rxxa_dist_type, mean_k_items_rxxa = mean_k_items_rxxa,
ux = ux, ni_ux = ni_ux, na_ux = na_ux, wt_ux = wt_ux, dep_sds_ux_obs = dep_sds_ux_obs,
mean_ux = mean_ux, var_ux = var_ux, k_ux = k_ux, mean_ni_ux = mean_ni_ux, mean_na_ux = mean_na_ux, dep_sds_ux_spec = dep_sds_ux_spec,
ut = ut, ni_ut = ni_ut, na_ut = na_ut, wt_ut = wt_ut, dep_sds_ut_obs = dep_sds_ut_obs,
mean_ut = mean_ut, var_ut = var_ut, k_ut = k_ut, mean_ni_ut = mean_ni_ut, mean_na_ut = mean_na_ut, dep_sds_ut_spec = dep_sds_ut_spec)
N_qxi <- mean_n_qxi * k_qxi
N_rxxi <- mean_n_rxxi * k_rxxi
N_qxa <- mean_n_qxa * k_qxa
N_rxxa <- mean_n_rxxa * k_rxxa
Ni_ux <- mean_ni_ux * k_ux
Na_ux <- mean_na_ux * k_ux
Ni_ut <- mean_ni_ut * k_ut
Na_ut <- mean_na_ut * k_ut
art_summary <- function(art_vec, wt_vec, ni_vec, na_vec = NULL, k_items = NULL, art_type = NULL, dependent_sds = FALSE,
mean_art_1 = NULL, var_art_1 = NULL, k_art_1 = NULL, mean_ni_art_1 = NULL, mean_na_art_1 = NA, dependent_sds_art_1 = FALSE, dist_type_1 = NULL, mean_k_items_art_1 = NULL,
mean_art_2 = NULL, var_art_2 = NULL, k_art_2 = NULL, mean_n_art_2 = NULL, dist_type_2 = NULL, mean_k_items_art_2 = NULL, art = "q", var_unbiased){
if(!is.null(art_vec)){
if(is.null(wt_vec)) wt_vec <- rep(1, length(art_vec))
if(art == "q" | art == "rel") valid_art <- filter_rel(rel_vec = art_vec, wt_vec = wt_vec)
if(art == "u") valid_art <- filter_u(u_vec = art_vec, wt_vec = wt_vec)
valid_art <- valid_art & !is.na(wt_vec)
if(!is.null(ni_vec)){
if(any(!is.na(ni_vec))){
ni_vec <- ni_vec[valid_art]
}else{
ni_vec <- NULL
}
}
if(!is.null(na_vec)) na_vec <- na_vec[valid_art]
art_vec <- art_vec[valid_art]
wt_vec <- wt_vec[valid_art]
if(!is.null(art_type)) art_type <- art_type[valid_art]
if(!is.null(k_items)) k_items <- k_items[valid_art]
if(art == "q") art_desc_obs <- t(wt_dist(x = art_vec^.5, wt = wt_vec, unbiased = var_unbiased))
if(art == "rel") art_desc_obs <- t(wt_dist(x = art_vec, wt = wt_vec, unbiased = var_unbiased))
if(art == "u") art_desc_obs <- t(wt_dist(x = art_vec, wt = wt_vec, unbiased = var_unbiased))
if(is.null(ni_vec)){
art_desc_obs <- cbind(art_desc_obs, var_e = 0, var_res = as.numeric(art_desc_obs[,"var"]), total_n = 1, n_wt = 0)
}else{
if(art == "q"){
var_e <- var_error_q(q = art_desc_obs[,"mean"], n = ni_vec, rel_type = art_type, k_items = k_items)
if(length(var_e) == 0){
var_e <- 0
}else{
var_e <- wt_mean(x = var_e, wt = ni_vec)
}
var_res <- as.numeric(art_desc_obs[,"var"] - var_e)
}
if(art == "rel"){
var_e <- var_error_rel(rel = art_desc_obs[,"mean"], n = ni_vec, rel_type = art_type, k_items = k_items)
if(length(var_e) == 0){
var_e <- 0
}else{
var_e <- wt_mean(x = var_e, wt = ni_vec)
}
var_res <- as.numeric(art_desc_obs[,"var"] - var_e)
}
if(art == "u"){
if(!is.null(na_vec)){
var_e <- var_error_u(u = art_desc_obs[,"mean"], ni = ni_vec, na = na_vec, dependent_sds = dependent_sds)
if(length(var_e) == 0){
var_e <- 0
}else{
var_e <- wt_mean(x = var_e, wt = ni_vec)
}
}else{
var_e <- var_error_u(u = art_desc_obs[,"mean"], ni = mean(ni_vec, na.rm = TRUE))
}
var_res <- as.numeric(art_desc_obs[,"var"] - var_e)
}
art_desc_obs <- cbind(art_desc_obs, var_e = var_e, var_res = var_res, total_n = sum(ni_vec, na.rm = TRUE), n_wt = 1)
art_desc_obs[,"var_res"] <- ifelse(art_desc_obs[,"var_res"] < 0, 0, as.numeric(art_desc_obs[,"var_res"]))
}
}else{
art_desc_obs <- NULL
}
if(!is.null(mean_art_1) & !is.null(var_art_1)){
if(art == "q") screen_rel(rel_vec = mean_art_1, art_name = "Mean square root of reliability")
if(art == "rel") screen_rel(rel_vec = mean_art_1, art_name = "Mean reliability")
if(art == "u") screen_u(u_vec = mean_art_1, art_name = "Mean u ratio")
art_desc_spec_1 <- cbind(mean = mean_art_1, var = var_art_1)
if(!is.null(mean_ni_art_1)){
valid_n <- !is.na(mean_ni_art_1)
var_e <- rep(0, nrow(art_desc_spec_1))
var_res <- as.numeric(art_desc_spec_1[,"var"])
if(art == "q") var_e[valid_n] <- as.numeric(var_error_q(q = art_desc_spec_1[valid_n,"mean"], n = mean_ni_art_1[valid_n],
rel_type = dist_type_1, k_items = mean_k_items_art_1))
if(art == "rel") var_e[valid_n] <- as.numeric(var_error_rel(rel = art_desc_spec_1[valid_n,"mean"], n = mean_ni_art_1[valid_n],
rel_type = dist_type_1, k_items = mean_k_items_art_1))
if(art == "u") var_e[valid_n] <- as.numeric(var_error_u(u = art_desc_spec_1[valid_n,"mean"], ni = mean_ni_art_1[valid_n],
na = mean_na_art_1, dependent_sds = dependent_sds_art_1))
var_res[valid_n] <- as.numeric(art_desc_spec_1[valid_n,"var"] - var_e[valid_n])
if(!is.null(k_art_1)){
art_desc_spec_1 <- cbind(art_desc_spec_1, var_e = var_e, var_res = var_res, total_n = k_art_1 * mean_ni_art_1, n_wt = as.numeric(valid_n))
}else{
art_desc_spec_1 <- cbind(art_desc_spec_1, var_e = var_e, var_res = var_res, total_n = 1, n_wt = 0)
}
art_desc_spec_1[,"var_res"] <- ifelse(art_desc_spec_1[,"var_res"] < 0, 0, as.numeric(art_desc_spec_1[,"var_res"]))
}else{
art_desc_spec_1 <- cbind(art_desc_spec_1, var_e = 0, var_res = as.numeric(art_desc_spec_1[,"var"]), total_n = 1, n_wt = 0)
}
}else{
art_desc_spec_1 <- NULL
}
if((art == "q" | art == "rel") & !is.null(mean_art_2) & !is.null(var_art_2)){
if(art == "q") screen_rel(rel_vec = mean_art_2, art_name = "Mean reliability")
if(art == "rel") screen_rel(rel_vec = mean_art_2, art_name = "Mean square root of reliability")
art_desc_spec_2 <- cbind(mean = mean_art_2, var = var_art_2)
if(!is.null(mean_n_art_2)){
valid_n <- !is.na(mean_n_art_2)
var_e <- rep(0, nrow(art_desc_spec_2))
var_res <- as.numeric(art_desc_spec_2[,"var"])
if(art == "q") var_e[valid_n] <- as.numeric(var_error_rel(rel = art_desc_spec_2[valid_n,"mean"], n = mean_n_art_2[valid_n],
rel_type = dist_type_2, k_items = mean_k_items_art_2))
if(art == "rel") var_e[valid_n] <- as.numeric(var_error_q(q = art_desc_spec_2[valid_n,"mean"], n = mean_n_art_2[valid_n],
rel_type = dist_type_2, k_items = mean_k_items_art_2))
var_res[valid_n] <- as.numeric(art_desc_spec_2[valid_n,"var"] - var_e[valid_n])
if(!is.null(k_art_2)){
art_desc_spec_2 <- cbind(art_desc_spec_2, var_e = var_e, var_res = var_res, total_n = k_art_2 * mean_n_art_2, n_wt = as.numeric(valid_n))
}else{
art_desc_spec_2 <- cbind(art_desc_spec_2, var_e = var_e, var_res = var_res, total_n = 1, n_wt = 0)
}
art_desc_spec_2[,"var_res"] <- ifelse(art_desc_spec_2[,"var_res"] < 0, 0, as.numeric(art_desc_spec_2[,"var_res"]))
}else{
art_desc_spec_2 <- cbind(art_desc_spec_2, var_e = 0, var_res = as.numeric(art_desc_spec_2[,"var"]), total_n = 1, n_wt = 0)
}
if(art == "q")
art_desc_spec_2 <- as.matrix(cbind(estimate_q_dist(mean_rel = art_desc_spec_2[,"mean"], var_rel = art_desc_spec_2[,"var"]),
cbind(var_e = estimate_q_dist(mean_rel = art_desc_spec_2[,"mean"], var_rel = art_desc_spec_2[,"var_e"])[,2]),
cbind(var_res = estimate_q_dist(mean_rel = art_desc_spec_2[,"mean"], var_rel = art_desc_spec_2[,"var_res"])[,2]),
matrix(art_desc_spec_2[,c("total_n", "n_wt")], ncol = 2)))
if(art == "rel")
art_desc_spec_2 <- as.matrix(cbind(estimate_rel_dist(mean_q = art_desc_spec_2[,"mean"], var_q = art_desc_spec_2[,"var"]),
cbind(var_e = estimate_rel_dist(mean_q = art_desc_spec_2[,"mean"], var_q = art_desc_spec_2[,"var_e"])[,2]),
cbind(var_res = estimate_rel_dist(mean_q = art_desc_spec_2[,"mean"], var_q = art_desc_spec_2[,"var_res"])[,2]),
matrix(art_desc_spec_2[,c("total_n", "n_wt")], ncol = 2)))
colnames(art_desc_spec_2) <- c("mean", "var", "var_e", "var_res", "total_n", "n_wt")
}else{
art_desc_spec_2 <- NULL
}
art_desc_mat <- rbind(art_desc_obs, art_desc_spec_1, art_desc_spec_2)
if(!is.null(art_desc_mat)){
art_desc_mat <- art_desc_mat[!is.na(art_desc_mat[,"mean"]),]
if(!is.matrix(art_desc_mat)){
if(length(art_desc_mat) == 0){
art_desc_mat <- NULL
}else{
art_desc_mat <- t(art_desc_mat)
}
}else{
if(nrow(art_desc_mat) == 0)
art_desc_mat <- NULL
}
}
if(!is.null(art_desc_mat)){
if(nrow(art_desc_mat) > 1){
n_wt <- all(art_desc_mat[,"n_wt"] == 1)
if(n_wt){
n_wt_vec <- as.numeric(art_desc_mat[,"total_n"])
}else{
warning("Sample sizes not supplied for one or more distributions; distributions were combined using unit weights", call. = FALSE)
n_wt_vec <- rep(1, nrow(art_desc_mat))
}
art_desc <- setNames(as.numeric(mix_dist(mean_vec = art_desc_mat[,"mean"], var_vec = art_desc_mat[,"var"], n_vec = n_wt_vec, unbiased = var_unbiased)[c(1,6)]), c("mean", "var"))
art_desc <- c(art_desc,
var_e = as.numeric(mix_dist(mean_vec = art_desc_mat[,"mean"], var_vec = art_desc_mat[,"var_e"], n_vec = n_wt_vec, unbiased = var_unbiased))[6],
var_res = as.numeric(mix_dist(mean_vec = art_desc_mat[,"mean"], var_vec = art_desc_mat[,"var_res"], n_vec = n_wt_vec, unbiased = var_unbiased))[6],
total_n = sum(n_wt_vec), n_wt = as.numeric(n_wt))
}else{
art_desc <- setNames(c(art_desc_mat), colnames(art_desc_mat))
}
}else{
art_desc <- matrix(0, 0, 6)
colnames(art_desc) <- c("mean", "var", "var_e", "var_res", "total_n", "n_wt")
}
if(is.null(dim(art_desc))) art_desc <- t(art_desc)
art_desc
}
art_desc <- matrix(0, 0, 6)
colnames(art_desc) <- c("mean", "var", "var_e", "var_res", "total_n", "n_wt")
if(!is.null(rxxi)){
rxxi_consistency <- convert_reltype2consistency(rel_type = rxxi_type)
if(any(rxxi_consistency)){
rxxi_c <- rxxi[rxxi_consistency]
n_rxxi_c <- n_rxxi[rxxi_consistency]
wt_rxxi_c <- wt_rxxi[rxxi_consistency]
rxxi_type_c <- rxxi_type[rxxi_consistency]
k_items_rxxi_c <- k_items_rxxi[rxxi_consistency]
}else{
rxxi_c <- n_rxxi_c <- wt_rxxi_c <- NULL
rxxi_type_c <- k_items_rxxi_c <- NULL
}
if(any(!rxxi_consistency)){
rxxi_m <- rxxi[!rxxi_consistency]
n_rxxi_m <- n_rxxi[!rxxi_consistency]
wt_rxxi_m <- wt_rxxi[!rxxi_consistency]
rxxi_type_m <- rxxi_type[!rxxi_consistency]
k_items_rxxi_m <- k_items_rxxi[!rxxi_consistency]
}else{
rxxi_m <- n_rxxi_m <- wt_rxxi_m <- NULL
rxxi_type_m <- k_items_rxxi_m <- NULL
}
}else{
rxxi_c <- n_rxxi_c <- wt_rxxi_c <- NULL
rxxi_m <- n_rxxi_m <- wt_rxxi_m <- NULL
rxxi_type_c <- k_items_rxxi_c <- NULL
rxxi_type_m <- k_items_rxxi_m <- NULL
}
if(!is.null(mean_qxi)){
qxi_dist_consistency <- convert_reltype2consistency(rel_type = qxi_dist_type)
if(any(qxi_dist_consistency)){
mean_qxi_c <- mean_qxi[qxi_dist_consistency]
var_qxi_c <- var_qxi[qxi_dist_consistency]
k_qxi_c <- k_qxi[qxi_dist_consistency]
mean_n_qxi_c <- mean_n_qxi[qxi_dist_consistency]
qxi_dist_type_c <- qxi_dist_type[qxi_dist_consistency]
mean_k_items_qxi_c <- mean_k_items_qxi[qxi_dist_consistency]
}else{
mean_qxi_c <- var_qxi_c <- k_qxi_c <- mean_n_qxi_c <- NULL
qxi_dist_type_c <- mean_k_items_qxi_c <- NULL
}
if(any(!qxi_dist_consistency)){
mean_qxi_m <- mean_qxi[!qxi_dist_consistency]
var_qxi_m <- var_qxi[!qxi_dist_consistency]
k_qxi_m <- k_qxi[!qxi_dist_consistency]
mean_n_qxi_m <- mean_n_qxi[!qxi_dist_consistency]
qxi_dist_type_m <- qxi_dist_type[!qxi_dist_consistency]
mean_k_items_qxi_m <- mean_k_items_qxi[!qxi_dist_consistency]
}else{
mean_qxi_m <- var_qxi_m <- k_qxi_m <- mean_n_qxi_m <- NULL
qxi_dist_type_m <- mean_k_items_qxi_m <- NULL
}
}else{
mean_qxi_c <- var_qxi_c <- k_qxi_c <- mean_n_qxi_c <- NULL
mean_qxi_m <- var_qxi_m <- k_qxi_m <- mean_n_qxi_m <- NULL
qxi_dist_type_c <- mean_k_items_qxi_c <- NULL
qxi_dist_type_m <- mean_k_items_qxi_m <- NULL
}
if(!is.null(mean_rxxi)){
rxxi_dist_consistency <- convert_reltype2consistency(rel_type = rxxi_dist_type)
if(any(rxxi_dist_consistency)){
mean_rxxi_c <- mean_rxxi[rxxi_dist_consistency]
var_rxxi_c <- var_rxxi[rxxi_dist_consistency]
k_rxxi_c <- k_rxxi[rxxi_dist_consistency]
mean_n_rxxi_c <- mean_n_rxxi[rxxi_dist_consistency]
rxxi_dist_type_c <- rxxi_dist_type[rxxi_dist_consistency]
mean_k_items_rxxi_c <- mean_k_items_rxxi[rxxi_dist_consistency]
}else{
mean_rxxi_c <- var_rxxi_c <- k_rxxi_c <- mean_n_rxxi_c <- NULL
rxxi_dist_type_c <- mean_k_items_rxxi_c <- NULL
}
if(any(!rxxi_dist_consistency)){
mean_rxxi_m <- mean_rxxi[!rxxi_dist_consistency]
var_rxxi_m <- var_rxxi[!rxxi_dist_consistency]
k_rxxi_m <- k_rxxi[!rxxi_dist_consistency]
mean_n_rxxi_m <- mean_n_rxxi[!rxxi_dist_consistency]
rxxi_dist_type_m <- rxxi_dist_type[!rxxi_dist_consistency]
mean_k_items_rxxi_m <- mean_k_items_rxxi[!rxxi_dist_consistency]
}else{
mean_rxxi_m <- var_rxxi_m <- k_rxxi_m <- mean_n_rxxi_m <- NULL
rxxi_dist_type_m <- mean_k_items_rxxi_m <- NULL
}
}else{
mean_rxxi_c <- var_rxxi_c <- k_rxxi_c <- mean_n_rxxi_c <- NULL
mean_rxxi_m <- var_rxxi_m <- k_rxxi_m <- mean_n_rxxi_m <- NULL
rxxi_dist_type_c <- mean_k_items_rxxi_c <- NULL
rxxi_dist_type_m <- mean_k_items_rxxi_m <- NULL
}
if(!is.null(rxxa)){
rxxa_consistency <- convert_reltype2consistency(rel_type = rxxa_type)
if(any(rxxa_consistency)){
rxxa_c <- rxxa[rxxa_consistency]
n_rxxa_c <- n_rxxa[rxxa_consistency]
wt_rxxa_c <- wt_rxxa[rxxa_consistency]
rxxa_type_c <- rxxa_type[rxxa_consistency]
k_items_rxxa_c <- k_items_rxxa[rxxa_consistency]
}else{
rxxa_c <- n_rxxa_c <- wt_rxxa_c <- NULL
rxxa_type_c <- k_items_rxxa_c <- NULL
}
if(any(!rxxa_consistency)){
rxxa_m <- rxxa[!rxxa_consistency]
n_rxxa_m <- n_rxxa[!rxxa_consistency]
wt_rxxa_m <- wt_rxxa[!rxxa_consistency]
rxxa_type_m <- rxxa_type[!rxxa_consistency]
k_items_rxxa_m <- k_items_rxxa[!rxxa_consistency]
}else{
rxxa_m <- n_rxxa_m <- wt_rxxa_m <- NULL
rxxa_type_m <- k_items_rxxa_m <- NULL
}
}else{
rxxa_c <- n_rxxa_c <- wt_rxxa_c <- NULL
rxxa_m <- n_rxxa_m <- wt_rxxa_m <- NULL
rxxa_type_c <- k_items_rxxa_c <- NULL
rxxa_type_m <- k_items_rxxa_m <- NULL
}
if(!is.null(mean_qxa)){
qxa_dist_consistency <- convert_reltype2consistency(rel_type = qxa_dist_type)
if(any(qxa_dist_consistency)){
mean_qxa_c <- mean_qxa[qxa_dist_consistency]
var_qxa_c <- var_qxa[qxa_dist_consistency]
k_qxa_c <- k_qxa[qxa_dist_consistency]
mean_n_qxa_c <- mean_n_qxa[qxa_dist_consistency]
qxa_dist_type_c <- qxa_dist_type[qxa_dist_consistency]
mean_k_items_qxa_c <- mean_k_items_qxa[qxa_dist_consistency]
}else{
mean_qxa_c <- var_qxa_c <- k_qxa_c <- mean_n_qxa_c <- NULL
qxa_dist_type_c <- mean_k_items_qxa_c <- NULL
}
if(any(!qxa_dist_consistency)){
mean_qxa_m <- mean_qxa[!qxa_dist_consistency]
var_qxa_m <- var_qxa[!qxa_dist_consistency]
k_qxa_m <- k_qxa[!qxa_dist_consistency]
mean_n_qxa_m <- mean_n_qxa[!qxa_dist_consistency]
qxa_dist_type_m <- qxa_dist_type[!qxa_dist_consistency]
mean_k_items_qxa_m <- mean_k_items_qxa[!qxa_dist_consistency]
}else{
mean_qxa_m <- var_qxa_m <- k_qxa_m <- mean_n_qxa_m <- NULL
qxa_dist_type_m <- mean_k_items_qxa_m <- NULL
}
}else{
mean_qxa_c <- var_qxa_c <- k_qxa_c <- mean_n_qxa_c <- NULL
mean_qxa_m <- var_qxa_m <- k_qxa_m <- mean_n_qxa_m <- NULL
qxa_dist_type_c <- mean_k_items_qxa_c <- NULL
qxa_dist_type_m <- mean_k_items_qxa_m <- NULL
}
if(!is.null(mean_rxxa)){
rxxa_dist_consistency <- convert_reltype2consistency(rel_type = rxxa_dist_type)
if(any(rxxa_dist_consistency)){
mean_rxxa_c <- mean_rxxa[rxxa_dist_consistency]
var_rxxa_c <- var_rxxa[rxxa_dist_consistency]
k_rxxa_c <- k_rxxa[rxxa_dist_consistency]
mean_n_rxxa_c <- mean_n_rxxa[rxxa_dist_consistency]
rxxa_dist_type_c <- rxxa_dist_type[rxxa_dist_consistency]
mean_k_items_rxxa_c <- mean_k_items_rxxa[rxxa_dist_consistency]
}else{
mean_rxxa_c <- var_rxxa_c <- k_rxxa_c <- mean_n_rxxa_c <- NULL
rxxa_dist_type_c <- mean_k_items_rxxa_c <- NULL
}
if(any(!rxxa_dist_consistency)){
mean_rxxa_m <- mean_rxxa[!rxxa_dist_consistency]
var_rxxa_m <- var_rxxa[!rxxa_dist_consistency]
k_rxxa_m <- k_rxxa[!rxxa_dist_consistency]
mean_n_rxxa_m <- mean_n_rxxa[!rxxa_dist_consistency]
rxxa_dist_type_m <- rxxa_dist_type[!rxxa_dist_consistency]
mean_k_items_rxxa_m <- mean_k_items_rxxa[!rxxa_dist_consistency]
}else{
mean_rxxa_m <- var_rxxa_m <- k_rxxa_m <- mean_n_rxxa_m <- NULL
rxxa_dist_type_m <- mean_k_items_rxxa_m <- NULL
}
}else{
mean_rxxa_c <- var_rxxa_c <- k_rxxa_c <- mean_n_rxxa_c <- NULL
mean_rxxa_m <- var_rxxa_m <- k_rxxa_m <- mean_n_rxxa_m <- NULL
rxxa_dist_type_c <- mean_k_items_rxxa_c <- NULL
rxxa_dist_type_m <- mean_k_items_rxxa_m <- NULL
}
.replace_null <- function(x){
if(length(x) == 0){
NULL
}else{
x
}
}
rxxi_c <- .replace_null(x = rxxi_c)
n_rxxi_c <- .replace_null(x = n_rxxi_c)
wt_rxxi_c <- .replace_null(x = wt_rxxi_c)
mean_qxi_c <- .replace_null(x = mean_qxi_c)
var_qxi_c <- .replace_null(x = var_qxi_c)
k_qxi_c <- .replace_null(x = k_qxi_c)
mean_n_qxi_c <- .replace_null(x = mean_n_qxi_c)
mean_rxxi_c <- .replace_null(x = mean_rxxi_c)
var_rxxi_c <- .replace_null(x = var_rxxi_c)
k_rxxi_c <- .replace_null(x = k_rxxi_c)
mean_n_rxxi_c <- .replace_null(x = mean_n_rxxi_c)
rxxa_c <- .replace_null(x = rxxa_c)
n_rxxa_c <- .replace_null(x = n_rxxa_c)
wt_rxxa_c <- .replace_null(x = wt_rxxa_c)
mean_qxa_c <- .replace_null(x = mean_qxa_c)
var_qxa_c <- .replace_null(x = var_qxa_c)
k_qxa_c <- .replace_null(x = k_qxa_c)
mean_n_qxa_c <- .replace_null(x = mean_n_qxa_c)
mean_rxxa_c <- .replace_null(x = mean_rxxa_c)
var_rxxa_c <- .replace_null(x = var_rxxa_c)
k_rxxa_c <- .replace_null(x = k_rxxa_c)
mean_n_rxxa_c <- .replace_null(x = mean_n_rxxa_c)
rxxi_m <- .replace_null(x = rxxi_m)
n_rxxi_m <- .replace_null(x = n_rxxi_m)
wt_rxxi_m <- .replace_null(x = wt_rxxi_m)
mean_qxi_m <- .replace_null(x = mean_qxi_m)
var_qxi_m <- .replace_null(x = var_qxi_m)
k_qxi_m <- .replace_null(x = k_qxi_m)
mean_n_qxi_m <- .replace_null(x = mean_n_qxi_m)
mean_rxxi_m <- .replace_null(x = mean_rxxi_m)
var_rxxi_m <- .replace_null(x = var_rxxi_m)
k_rxxi_m <- .replace_null(x = k_rxxi_m)
mean_n_rxxi_m <- .replace_null(x = mean_n_rxxi_m)
rxxa_m <- .replace_null(x = rxxa_m)
n_rxxa_m <- .replace_null(x = n_rxxa_m)
wt_rxxa_m <- .replace_null(x = wt_rxxa_m)
mean_qxa_m <- .replace_null(x = mean_qxa_m)
var_qxa_m <- .replace_null(x = var_qxa_m)
k_qxa_m <- .replace_null(x = k_qxa_m)
mean_n_qxa_m <- .replace_null(x = mean_n_qxa_m)
mean_rxxa_m <- .replace_null(x = mean_rxxa_m)
var_rxxa_m <- .replace_null(x = var_rxxa_m)
k_rxxa_m <- .replace_null(x = k_rxxa_m)
mean_n_rxxa_m <- .replace_null(x = mean_n_rxxa_m)
## All reliability indices
qxa_desc <- art_summary(art_vec = rxxa, wt_vec = wt_rxxa, ni_vec = n_rxxa, art_type = rxxa_type, k_items = k_items_rxxa,
mean_art_1 = mean_qxa, var_art_1 = var_qxa, k_art_1 = k_qxa, mean_ni_art_1 = mean_n_qxa, dist_type_1 = qxa_dist_type, mean_k_items_art_1 = mean_k_items_qxa,
mean_art_2 = mean_rxxa, var_art_2 = var_rxxa, k_art_2 = k_rxxa, mean_n_art_2 = mean_n_rxxa, dist_type_2 = rxxa_dist_type, mean_k_items_art_2 = mean_k_items_rxxa,
art = "q", var_unbiased = var_unbiased)
qxi_desc <- art_summary(art_vec = rxxi, wt_vec = wt_rxxi, ni_vec = n_rxxi, art_type = rxxi_type, k_items = k_items_rxxi,
mean_art_1 = mean_qxi, var_art_1 = var_qxi, k_art_1 = k_qxi, mean_ni_art_1 = mean_n_qxi, dist_type_1 = qxi_dist_type, mean_k_items_art_1 = mean_k_items_qxi,
mean_art_2 = mean_rxxi, var_art_2 = var_rxxi, k_art_2 = k_rxxi, mean_n_art_2 = mean_n_rxxi, dist_type_2 = rxxi_dist_type, mean_k_items_art_2 = mean_k_items_rxxi,
art = "q", var_unbiased = var_unbiased)
## All reliability coefficients
rxxa_desc <- art_summary(art_vec = rxxa, wt_vec = wt_rxxa, ni_vec = n_rxxa, art_type = rxxa_type, k_items = k_items_rxxa,
mean_art_1 = mean_rxxa, var_art_1 = var_rxxa, k_art_1 = k_rxxa, mean_ni_art_1 = mean_n_rxxa, dist_type_1 = rxxa_dist_type, mean_k_items_art_1 = mean_k_items_rxxa,
mean_art_2 = mean_qxa, var_art_2 = var_qxa, k_art_2 = k_qxa, mean_n_art_2 = mean_n_qxa, dist_type_2 = qxa_dist_type, mean_k_items_art_2 = mean_k_items_qxa,
art = "rel", var_unbiased = var_unbiased)
rxxi_desc <- art_summary(art_vec = rxxi, wt_vec = wt_rxxi, ni_vec = n_rxxi, art_type = rxxi_type, k_items = k_items_rxxi,
mean_art_1 = mean_rxxi, var_art_1 = var_rxxi, k_art_1 = k_rxxi, mean_ni_art_1 = mean_n_rxxi, dist_type_1 = rxxi_dist_type, mean_k_items_art_1 = mean_k_items_rxxi,
mean_art_2 = mean_qxi, var_art_2 = var_qxi, k_art_2 = k_qxi, mean_n_art_2 = mean_n_qxi, dist_type_2 = qxi_dist_type, mean_k_items_art_2 = mean_k_items_qxi,
art = "rel", var_unbiased = var_unbiased)
## Consistency estimates of reliability indices
qxa_desc_c <- art_summary(art_vec = rxxa_c, wt_vec = wt_rxxa_c, ni_vec = n_rxxa_c, art_type = rxxa_type_c, k_items = k_items_rxxa_c,
mean_art_1 = mean_qxa_c, var_art_1 = var_qxa_c, k_art_1 = k_qxa_c, mean_ni_art_1 = mean_n_qxa_c, dist_type_1 = qxa_dist_type_c, mean_k_items_art_1 = mean_k_items_qxa_c,
mean_art_2 = mean_rxxa_c, var_art_2 = var_rxxa_c, k_art_2 = k_rxxa_c, mean_n_art_2 = mean_n_rxxa_c, dist_type_2 = rxxa_dist_type_c, mean_k_items_art_2 = mean_k_items_rxxa_c,
art = "q", var_unbiased = var_unbiased)
qxi_desc_c <- art_summary(art_vec = rxxi_c, wt_vec = wt_rxxi_c, ni_vec = n_rxxi_c, art_type = rxxi_type_c, k_items = k_items_rxxi_c,
mean_art_1 = mean_qxi_c, var_art_1 = var_qxi_c, k_art_1 = k_qxi_c, mean_ni_art_1 = mean_n_qxi_c, dist_type_1 = qxi_dist_type_c, mean_k_items_art_1 = mean_k_items_qxi_c,
mean_art_2 = mean_rxxi_c, var_art_2 = var_rxxi_c, k_art_2 = k_rxxi_c, mean_n_art_2 = mean_n_rxxi_c, dist_type_2 = rxxi_dist_type_c, mean_k_items_art_2 = mean_k_items_rxxi_c,
art = "q", var_unbiased = var_unbiased)
## Multi-administration estimates of reliability indices
qxa_desc_m <- art_summary(art_vec = rxxa_m, wt_vec = wt_rxxa_m, ni_vec = n_rxxa_m, art_type = rxxa_type_m, k_items = k_items_rxxa_m,
mean_art_1 = mean_qxa_m, var_art_1 = var_qxa_m, k_art_1 = k_qxa_m, mean_ni_art_1 = mean_n_qxa_m, dist_type_1 = qxa_dist_type_m, mean_k_items_art_1 = mean_k_items_qxa_m,
mean_art_2 = mean_rxxa_m, var_art_2 = var_rxxa_m, k_art_2 = k_rxxa_m, mean_n_art_2 = mean_n_rxxa_m, dist_type_2 = rxxa_dist_type_m, mean_k_items_art_2 = mean_k_items_rxxa_m,
art = "q", var_unbiased = var_unbiased)
qxi_desc_m <- art_summary(art_vec = rxxi_m, wt_vec = wt_rxxi_m, ni_vec = n_rxxi_m, art_type = rxxi_type_m, k_items = k_items_rxxi_m,
mean_art_1 = mean_qxi_m, var_art_1 = var_qxi_m, k_art_1 = k_qxi_m, mean_ni_art_1 = mean_n_qxi_m, dist_type_1 = qxi_dist_type_m, mean_k_items_art_1 = mean_k_items_qxi_m,
mean_art_2 = mean_rxxi_m, var_art_2 = var_rxxi_m, k_art_2 = k_rxxi_m, mean_n_art_2 = mean_n_rxxi_m, dist_type_2 = rxxi_dist_type_m, mean_k_items_art_2 = mean_k_items_rxxi_m,
art = "q", var_unbiased = var_unbiased)
## Consistency estimates of reliability coefficients
rxxa_desc_c <- art_summary(art_vec = rxxa_c, wt_vec = wt_rxxa_c, ni_vec = n_rxxa_c, art_type = rxxa_type_c, k_items = k_items_rxxa_c,
mean_art_1 = mean_rxxa_c, var_art_1 = var_rxxa_c, k_art_1 = k_rxxa_c, mean_ni_art_1 = mean_n_rxxa_c, dist_type_1 = rxxa_dist_type_c, mean_k_items_art_1 = mean_k_items_rxxa_c,
mean_art_2 = mean_qxa_c, var_art_2 = var_qxa_c, k_art_2 = k_qxa_c, mean_n_art_2 = mean_n_qxa_c, dist_type_2 = qxa_dist_type_c, mean_k_items_art_2 = mean_k_items_qxa_c,
art = "rel", var_unbiased = var_unbiased)
rxxi_desc_c <- art_summary(art_vec = rxxi_c, wt_vec = wt_rxxi_c, ni_vec = n_rxxi_c, art_type = rxxi_type_c, k_items = k_items_rxxi_c,
mean_art_1 = mean_rxxi_c, var_art_1 = var_rxxi_c, k_art_1 = k_rxxi_c, mean_ni_art_1 = mean_n_rxxi_c, dist_type_1 = rxxi_dist_type_c, mean_k_items_art_1 = mean_k_items_rxxi_c,
mean_art_2 = mean_qxi_c, var_art_2 = var_qxi_c, k_art_2 = k_qxi_c, mean_n_art_2 = mean_n_qxi_c, dist_type_2 = qxi_dist_type_c, mean_k_items_art_2 = mean_k_items_qxi_c,
art = "rel", var_unbiased = var_unbiased)
## Multi-administration estimates of reliability coefficients
rxxa_desc_m <- art_summary(art_vec = rxxa_m, wt_vec = wt_rxxa_m, ni_vec = n_rxxa_m, art_type = rxxa_type_m, k_items = k_items_rxxa_m,
mean_art_1 = mean_rxxa_m, var_art_1 = var_rxxa_m, k_art_1 = k_rxxa_m, mean_ni_art_1 = mean_n_rxxa_m, dist_type_1 = rxxa_dist_type_m, mean_k_items_art_1 = mean_k_items_rxxa_m,
mean_art_2 = mean_qxa_m, var_art_2 = var_qxa_m, k_art_2 = k_qxa_m, mean_n_art_2 = mean_n_qxa_m, dist_type_2 = qxa_dist_type_m, mean_k_items_art_2 = mean_k_items_qxa_m,
art = "rel", var_unbiased = var_unbiased)
rxxi_desc_m <- art_summary(art_vec = rxxi_m, wt_vec = wt_rxxi_m, ni_vec = n_rxxi_m, art_type = rxxi_type_m, k_items = k_items_rxxi_m,
mean_art_1 = mean_rxxi_m, var_art_1 = var_rxxi_m, k_art_1 = k_rxxi_m, mean_ni_art_1 = mean_n_rxxi_m, dist_type_1 = rxxi_dist_type_m, mean_k_items_art_1 = mean_k_items_rxxi_m,
mean_art_2 = mean_qxi_m, var_art_2 = var_qxi_m, k_art_2 = k_qxi_m, mean_n_art_2 = mean_n_qxi_m, dist_type_2 = qxi_dist_type_m, mean_k_items_art_2 = mean_k_items_qxi_m,
art = "rel", var_unbiased = var_unbiased)
## u ratios
ux_desc <- art_summary(art_vec = ux, wt_vec = wt_ux, ni_vec = ni_ux, na_vec = na_ux, dependent_sds = dep_sds_ux_obs,
mean_art_1 = mean_ux, var_art_1 = var_ux, k_art_1 = k_ux,
mean_ni_art_1 = mean_ni_ux, mean_na_art_1 = mean_na_ux, dependent_sds_art_1 = dep_sds_ux_spec, art = "u", var_unbiased = var_unbiased)
ut_desc <- art_summary(art_vec = ut, wt_vec = wt_ut, ni_vec = ni_ut, na_vec = na_ut, dependent_sds = dep_sds_ut_obs,
mean_art_1 = mean_ut, var_art_1 = var_ut, k_art_1 = k_ut,
mean_ni_art_1 = mean_ni_ut, mean_na_art_1 = mean_na_ut, dependent_sds_art_1 = dep_sds_ut_spec, art = "u", var_unbiased = var_unbiased)
est_summaries <- function(qxi_desc, qxa_desc,
rxxi_desc, rxxa_desc,
qxi_desc_c, qxa_desc_c,
rxxi_desc_c, rxxa_desc_c,
qxi_desc_m, qxa_desc_m,
rxxi_desc_m, rxxa_desc_m,
ux_desc, ut_desc,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE){
filler <- matrix(0, 0, 5)
colnames(filler) <- c("mean", "var", "var_e", "var_res", "wt")
ux_wt <- as.numeric(ifelse(nrow(ux_desc) > 0, ifelse(ux_desc[,"n_wt"] == 1, ux_desc[,"total_n"], 1), 0))
ut_wt <- as.numeric(ifelse(nrow(ut_desc) > 0, ifelse(ut_desc[,"n_wt"] == 1, ut_desc[,"total_n"], 1), 0))
p_ux <- ux_wt / (ux_wt + ut_wt)
p_ut <- ut_wt / (ux_wt + ut_wt)
qxa_wt <- as.numeric(ifelse(nrow(qxa_desc) > 0, ifelse(qxa_desc[,"n_wt"] == 1, qxa_desc[,"total_n"], 1), 0))
qxa_wt_c <- as.numeric(ifelse(nrow(qxa_desc_c) > 0, ifelse(qxa_desc_c[,"n_wt"] == 1, qxa_desc_c[,"total_n"], 1), 0))
qxa_wt_m <- as.numeric(ifelse(nrow(qxa_desc_m) > 0, ifelse(qxa_desc_m[,"n_wt"] == 1, qxa_desc_m[,"total_n"], 1), 0))
qxi_wt <- as.numeric(ifelse(nrow(qxi_desc) > 0, ifelse(qxi_desc[,"n_wt"] == 1, qxi_desc[,"total_n"], 1), 0))
qxi_wt_c <- as.numeric(ifelse(nrow(qxi_desc_c) > 0, ifelse(qxi_desc_c[,"n_wt"] == 1, qxi_desc_c[,"total_n"], 1), 0))
qxi_wt_m <- as.numeric(ifelse(nrow(qxi_desc_m) > 0, ifelse(qxi_desc_m[,"n_wt"] == 1, qxi_desc_m[,"total_n"], 1), 0))
p_qxa <- qxa_wt / (qxi_wt + qxa_wt)
p_qxi <- qxi_wt / (qxi_wt + qxa_wt)
p_ux[is.na(p_ux)] <- p_ut[is.na(p_ut)] <- p_qxa[is.na(p_qxa)] <- p_qxi[is.na(p_qxi)] <- 0
if(nrow(qxa_desc) > 0){
qxa_desc <- t(c(qxa_desc[,1:4], wt = qxa_wt))
rxxa_desc <- t(c(rxxa_desc[,1:4], wt = qxa_wt))
}else{
qxa_desc <- rxxa_desc <- filler
}
if(nrow(qxa_desc_c) > 0){
qxa_desc_c <- t(c(qxa_desc_c[,1:4], wt = qxa_wt_c))
rxxa_desc_c <- t(c(rxxa_desc_c[,1:4], wt = qxa_wt_c))
}else{
qxa_desc_c <- rxxa_desc_c <- filler
}
if(nrow(qxa_desc_m) > 0){
qxa_desc_m <- t(c(qxa_desc_m[,1:4], wt = qxa_wt_m))
rxxa_desc_m <- t(c(rxxa_desc_m[,1:4], wt = qxa_wt_m))
}else{
qxa_desc_m <- rxxa_desc_m <- filler
}
if(nrow(qxi_desc) > 0){
qxi_desc <- t(c(qxi_desc[,1:4], wt = qxi_wt))
rxxi_desc <- t(c(rxxi_desc[,1:4], wt = qxi_wt))
}else{
qxi_desc <- rxxi_desc <- filler
}
if(nrow(qxi_desc_c) > 0){
qxi_desc_c <- t(c(qxi_desc_c[,1:4], wt = qxi_wt_c))
rxxi_desc_c <- t(c(rxxi_desc_c[,1:4], wt = qxi_wt_c))
}else{
qxi_desc_c <- rxxi_desc_c <- filler
}
if(nrow(qxi_desc_m) > 0){
qxi_desc_m <- t(c(qxi_desc_m[,1:4], wt = qxi_wt_m))
rxxi_desc_m <- t(c(rxxi_desc_m[,1:4], wt = qxi_wt_m))
}else{
qxi_desc_m <- rxxi_desc_m <- filler
}
if(nrow(ux_desc) > 0){
ux_desc <- t(c(ux_desc[,1:4], wt = ux_wt))
}else{
ux_desc <- filler
}
if(nrow(ut_desc) > 0){
ut_desc <- t(c(ut_desc[,1:4], wt = ut_wt))
}else{
ut_desc <- filler
}
if(estimate_rxxa){
if(nrow(qxi_desc) > 0 & nrow(ux_desc) > 0){
est_mean_qxa_irr <- estimate_rxxa(rxxi = qxi_desc[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)^.5
est_var_qxa_irr <- estimate_var_qxa_ux(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_qxa_irr <- estimate_var_qxa_ux(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_qxa_irr <- estimate_var_qxa_ux(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_qxa_desc_ux_irr <- t(c(mean = est_mean_qxa_irr, var = est_var_qxa_irr, var_e = est_var_e_qxa_irr, var_res = est_var_res_qxa_irr, wt = as.numeric(p_ux * qxi_desc[,"wt"])))
if(nrow(qxi_desc_c) > 0){
est_mean_qxa_drr_c <- estimate_rxxa(rxxi = qxi_desc_c[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")^.5
est_var_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_e_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_res_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "internal_consistency")
est_qxa_desc_ux_drr_c <- t(c(mean = est_mean_qxa_drr_c, var = est_var_qxa_drr_c, var_e = est_var_e_qxa_drr_c, var_res = est_var_res_qxa_drr_c, wt = as.numeric(p_ux * qxi_desc_c[,"wt"])))
}else{
est_qxa_desc_ux_drr_c <- filler
}
if(nrow(qxi_desc_m) > 0){
est_mean_qxa_drr_m <- estimate_rxxa(rxxi = qxi_desc_m[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")^.5
est_var_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_e_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_res_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_qxa_desc_ux_drr_m <- t(c(mean = est_mean_qxa_drr_m, var = est_var_qxa_drr_m, var_e = est_var_e_qxa_drr_m, var_res = est_var_res_qxa_drr_m, wt = as.numeric(p_ux * qxi_desc_m[,"wt"])))
}else{
est_qxa_desc_ux_drr_m <- filler
}
est_mean_rxxa_irr <- estimate_rxxa(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)
est_var_rxxa_irr <- estimate_var_rxxa_ux(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_rxxa_irr <- estimate_var_rxxa_ux(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_rxxa_irr <- estimate_var_rxxa_ux(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_rxxa_desc_ux_irr <- t(c(mean = est_mean_rxxa_irr, var = est_var_rxxa_irr, var_e = est_var_e_rxxa_irr, var_res = est_var_res_rxxa_irr, wt = as.numeric(p_ux * rxxi_desc[,"wt"])))
if(nrow(rxxi_desc_c) > 0){
est_mean_rxxa_drr_c <- estimate_rxxa(rxxi = rxxi_desc_c[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_e_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_res_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_rxxa_desc_ux_drr_c <- t(c(mean = est_mean_rxxa_drr_c, var = est_var_rxxa_drr_c, var_e = est_var_e_rxxa_drr_c, var_res = est_var_res_rxxa_drr_c, wt = as.numeric(p_ux * rxxi_desc_c[,"wt"])))
}else{
est_rxxa_desc_ux_drr_c <- filler
}
if(nrow(rxxi_desc_m) > 0){
est_mean_rxxa_drr_m <- estimate_rxxa(rxxi = rxxi_desc_m[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_e_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_res_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_rxxa_desc_ux_drr_m <- t(c(mean = est_mean_rxxa_drr_m, var = est_var_rxxa_drr_m, var_e = est_var_e_rxxa_drr_m, var_res = est_var_res_rxxa_drr_m, wt = as.numeric(p_ux * rxxi_desc_m[,"wt"])))
}else{
est_rxxa_desc_ux_drr_m <- filler
}
}else{
est_qxa_desc_ux_irr <- est_rxxa_desc_ux_irr <- filler
est_qxa_desc_ux_drr_c <- est_qxa_desc_ux_drr_m <- filler
est_rxxa_desc_ux_drr_c <- est_rxxa_desc_ux_drr_m <- filler
}
if(nrow(qxi_desc) > 0 & nrow(ut_desc) > 0){
est_mean_qxa <- estimate_rxxa(rxxi = qxi_desc[,"mean"]^2, ux = ut_desc[,"mean"], ux_observed = FALSE)^.5
est_var_qxa <- estimate_var_qxa_ut(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_qxa <- estimate_var_qxa_ut(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_qxa <- estimate_var_qxa_ut(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_res"], ut = ut_desc[,"mean"])
est_qxa_desc_ut_irr <- t(c(mean = est_mean_qxa, var = est_var_qxa, var_e = est_var_e_qxa, var_res = est_var_res_qxa, wt = as.numeric(p_ut * qxi_desc[,"wt"])))
if(nrow(qxi_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxi_desc_c[,"mean"]^2, rxx_restricted = TRUE)
est_mean_qxa_drr_c <- estimate_rxxa(rxxi = qxi_desc_c[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")^.5
est_var_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_e_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_res_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "internal_consistency")
est_qxa_desc_ut_drr_c <- t(c(mean = est_mean_qxa_drr_c, var = est_var_qxa_drr_c, var_e = est_var_e_qxa_drr_c, var_res = est_var_res_qxa_drr_c, wt = as.numeric(p_ut * qxi_desc_c[,"wt"])))
}else{
est_qxa_desc_ut_drr_c <- filler
}
if(nrow(qxi_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxi_desc_m[,"mean"]^2, rxx_restricted = TRUE)
est_mean_qxa_drr_m <- estimate_rxxa(rxxi = qxi_desc_m[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")^.5
est_var_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_e_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_res_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_qxa_desc_ut_drr_m <- t(c(mean = est_mean_qxa_drr_m, var = est_var_qxa_drr_m, var_e = est_var_e_qxa_drr_m, var_res = est_var_res_qxa_drr_m, wt = as.numeric(p_ut * qxi_desc_m[,"wt"])))
}else{
est_qxa_desc_ut_drr_m <- filler
}
est_mean_rxxa <- estimate_rxxa(rxxi = rxxi_desc[,"mean"], ux = ut_desc[,"mean"], ux_observed = FALSE)
est_var_rxxa <- estimate_var_rxxa_ut(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_rxxa <- estimate_var_rxxa_ut(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_rxxa <- estimate_var_rxxa_ut(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_res"], ut = ut_desc[,"mean"])
est_rxxa_desc_ut_irr <- t(c(mean = est_mean_rxxa, var = est_var_rxxa, var_e = est_var_e_rxxa, var_res = est_var_res_rxxa, wt = as.numeric(p_ut * qxi_desc[,"wt"])))
if(nrow(rxxi_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxi_desc_c[,"mean"], rxx_restricted = TRUE)
est_mean_rxxa_drr_c <- estimate_rxxa(rxxi = rxxi_desc_c[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_e_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_res_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_rxxa_desc_ut_drr_c <- t(c(mean = est_mean_rxxa_drr_c, var = est_var_rxxa_drr_c, var_e = est_var_e_rxxa_drr_c, var_res = est_var_res_rxxa_drr_c, wt = as.numeric(p_ut * rxxi_desc_c[,"wt"])))
}else{
est_rxxa_desc_ut_drr_c <- filler
}
if(nrow(rxxi_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxi_desc_m[,"mean"], rxx_restricted = TRUE)
est_mean_rxxa_drr_m <- estimate_rxxa(rxxi = rxxi_desc_m[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_e_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_res_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_rxxa_desc_ut_drr_m <- t(c(mean = est_mean_rxxa_drr_m, var = est_var_rxxa_drr_m, var_e = est_var_e_rxxa_drr_m, var_res = est_var_res_rxxa_drr_m, wt = as.numeric(p_ut * rxxi_desc_m[,"wt"])))
}else{
est_rxxa_desc_ut_drr_m <- filler
}
}else{
est_qxa_desc_ut_irr <- est_rxxa_desc_ut_irr <- filler
est_qxa_desc_ut_drr_c <- est_qxa_desc_ut_drr_m <- filler
est_rxxa_desc_ut_drr_c <- est_rxxa_desc_ut_drr_m <- filler
}
}else{
est_qxa_desc_ux_irr <- est_rxxa_desc_ux_irr <- filler
est_qxa_desc_ux_drr_c <- est_qxa_desc_ux_drr_m <- filler
est_rxxa_desc_ux_drr_c <- est_rxxa_desc_ux_drr_m <- filler
est_qxa_desc_ut_irr <- est_rxxa_desc_ut_irr <- filler
est_qxa_desc_ut_drr_c <- est_qxa_desc_ut_drr_m <- filler
est_rxxa_desc_ut_drr_c <- est_rxxa_desc_ut_drr_m <- filler
}
if(estimate_rxxi){
if(nrow(qxa_desc) > 0 & nrow(ux_desc) > 0){
est_mean_qxi_irr <- estimate_rxxi(rxxa = qxa_desc[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)^.5
est_var_qxi_irr <- estimate_var_qxi_ux(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_qxi_irr <- estimate_var_qxi_ux(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_qxi_irr <- estimate_var_qxi_ux(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_qxi_desc_ux_irr <- t(c(mean = est_mean_qxi_irr, var = est_var_qxi_irr, var_e = est_var_e_qxi_irr, var_res = est_var_res_qxi_irr, wt = as.numeric(p_ux * qxa_desc[,"wt"])))
if(nrow(qxa_desc_c) > 0){
est_mean_qxi_drr_c <- estimate_rxxi(rxxa = qxa_desc_c[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")^.5
est_var_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_e_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_res_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "internal_consistency")
est_qxi_desc_ux_drr_c <- t(c(mean = est_mean_qxi_drr_c, var = est_var_qxi_drr_c, var_e = est_var_e_qxi_drr_c, var_res = est_var_res_qxi_drr_c, wt = as.numeric(p_ux * qxa_desc_c[,"wt"])))
}else{
est_qxi_desc_ux_drr_c <- filler
}
if(nrow(qxa_desc_m) > 0){
est_mean_qxi_drr_m <- estimate_rxxi(rxxa = qxa_desc_m[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")^.5
est_var_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_e_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_res_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_qxi_desc_ux_drr_m <- t(c(mean = est_mean_qxi_drr_m, var = est_var_qxi_drr_m, var_e = est_var_e_qxi_drr_m, var_res = est_var_res_qxi_drr_m, wt = as.numeric(p_ux * qxa_desc_m[,"wt"])))
}else{
est_qxi_desc_ux_drr_m <- filler
}
est_mean_rxxi_irr <- estimate_rxxi(rxxa = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)
est_var_rxxi_irr <- estimate_var_rxxi_ux(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_rxxi_irr <- estimate_var_rxxi_ux(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_rxxi_irr <- estimate_var_rxxi_ux(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_rxxi_desc_ux_irr <- t(c(mean = est_mean_rxxi_irr, var = est_var_rxxi_irr, var_e = est_var_e_rxxi_irr, var_res = est_var_res_rxxi_irr, wt = as.numeric(p_ux * qxa_desc[,"wt"])))
if(nrow(rxxa_desc_c) > 0){
est_mean_rxxi_drr_c <- estimate_rxxi(rxxa = rxxa_desc_c[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_e_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_res_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_rxxi_desc_ux_drr_c <- t(c(mean = est_mean_rxxi_drr_c, var = est_var_rxxi_drr_c, var_e = est_var_e_rxxi_drr_c, var_res = est_var_res_rxxi_drr_c, wt = as.numeric(p_ux * rxxa_desc_c[,"wt"])))
}else{
est_rxxi_desc_ux_drr_c <- filler
}
if(nrow(rxxa_desc_m) > 0){
est_mean_rxxi_drr_m <- estimate_rxxi(rxxa = rxxa_desc_m[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_e_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_res_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_rxxi_desc_ux_drr_m <- t(c(mean = est_mean_rxxi_drr_m, var = est_var_rxxi_drr_m, var_e = est_var_e_rxxi_drr_m, var_res = est_var_res_rxxi_drr_m, wt = as.numeric(p_ux * rxxa_desc_m[,"wt"])))
}else{
est_rxxi_desc_ux_drr_m <- filler
}
}else{
est_qxi_desc_ux_irr <- est_rxxi_desc_ux_irr <- filler
est_qxi_desc_ux_drr_c <- est_qxi_desc_ux_drr_m <- filler
est_rxxi_desc_ux_drr_c <- est_rxxi_desc_ux_drr_m <- filler
}
if(nrow(qxa_desc) > 0 & nrow(ut_desc) > 0){
est_mean_qxi <- estimate_rxxi(rxxa = qxa_desc[,"mean"]^2, ux = ut_desc[,"mean"], ux_observed = FALSE)^.5
est_var_qxi <- estimate_var_qxi_ut(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_qxi <- estimate_var_qxi_ut(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_qxi <- estimate_var_qxi_ut(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_res"], ut = ut_desc[,"mean"])
est_qxi_desc_ut_irr <- t(c(mean = est_mean_qxi, var = est_var_qxi, var_e = est_var_e_qxi, var_res = est_var_res_qxi, wt = as.numeric(p_ut * qxa_desc[,"wt"])))
if(nrow(qxa_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxa_desc_c[,"mean"]^2, rxx_restricted = FALSE)
est_mean_qxi_drr_c <- estimate_rxxi(rxxa = qxa_desc_c[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")^.5
est_var_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_e_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_res_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "internal_consistency")
est_qxi_desc_ut_drr_c <- t(c(mean = est_mean_qxi_drr_c, var = est_var_qxi_drr_c, var_e = est_var_e_qxi_drr_c, var_res = est_var_res_qxi_drr_c, wt = as.numeric(p_ut * qxa_desc_c[,"wt"])))
}else{
est_qxi_desc_ut_drr_c <- filler
}
if(nrow(qxa_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxa_desc_m[,"mean"]^2, rxx_restricted = FALSE)
est_mean_qxi_drr_m <- estimate_rxxi(rxxa = qxa_desc_m[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")^.5
est_var_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_e_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_res_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_qxi_desc_ut_drr_m <- t(c(mean = est_mean_qxi_drr_m, var = est_var_qxi_drr_m, var_e = est_var_e_qxi_drr_m, var_res = est_var_res_qxi_drr_m, wt = as.numeric(p_ut * qxa_desc_m[,"wt"])))
}else{
est_qxi_desc_ut_drr_m <- filler
}
est_mean_rxxi <- estimate_rxxi(rxxa = rxxa_desc[,"mean"], ux = ut_desc[,"mean"], ux_observed = FALSE)
est_var_qxi <- estimate_var_rxxi_ut(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_qxi <- estimate_var_rxxi_ut(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_qxi <- estimate_var_rxxi_ut(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_res"], ut = ut_desc[,"mean"])
est_rxxi_desc_ut_irr <- t(c(mean = est_mean_rxxi, var = est_var_qxi, var_e = est_var_e_qxi, var_res = est_var_res_qxi, wt = as.numeric(p_ut * qxa_desc[,"wt"])))
if(nrow(rxxa_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxa_desc_c[,"mean"], rxx_restricted = FALSE)
est_mean_rxxi_drr_c <- estimate_rxxi(rxxa = rxxa_desc_c[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_e_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_res_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_rxxi_desc_ut_drr_c <- t(c(mean = est_mean_rxxi_drr_c, var = est_var_rxxi_drr_c, var_e = est_var_e_rxxi_drr_c, var_res = est_var_res_rxxi_drr_c, wt = as.numeric(p_ut * rxxa_desc_c[,"wt"])))
}else{
est_rxxi_desc_ut_drr_c <- filler
}
if(nrow(rxxa_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxa_desc_m[,"mean"], rxx_restricted = FALSE)
est_mean_rxxi_drr_m <- estimate_rxxi(rxxa = rxxa_desc_m[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_e_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_res_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_rxxi_desc_ut_drr_m <- t(c(mean = est_mean_rxxi_drr_m, var = est_var_rxxi_drr_m, var_e = est_var_e_rxxi_drr_m, var_res = est_var_res_rxxi_drr_m, wt = as.numeric(p_ut * rxxa_desc_m[,"wt"])))
}else{
est_rxxi_desc_ut_drr_m <- filler
}
}else{
est_qxi_desc_ut_irr <- est_rxxi_desc_ut_irr <- filler
est_qxi_desc_ut_drr_c <- est_qxi_desc_ut_drr_m <- filler
est_rxxi_desc_ut_drr_c <- est_rxxi_desc_ut_drr_m <- filler
}
}else{
est_qxi_desc_ux_irr <- est_rxxi_desc_ux_irr <- filler
est_qxi_desc_ux_drr_c <- est_qxi_desc_ux_drr_m <- filler
est_rxxi_desc_ux_drr_c <- est_rxxi_desc_ux_drr_m <- filler
est_qxi_desc_ut_irr <- est_rxxi_desc_ut_irr <- filler
est_qxi_desc_ut_drr_c <- est_qxi_desc_ut_drr_m <- filler
est_rxxi_desc_ut_drr_c <- est_rxxi_desc_ut_drr_m <- filler
}
if(estimate_ux){
if(nrow(qxi_desc) > 0 & nrow(ut_desc) > 0){
est_mean_ux <- estimate_ux(rxx = qxi_desc[,"mean"]^2, ut = ut_desc[,"mean"], rxx_restricted = TRUE)
est_var_ux <- estimate_var_ux_qxi(qxi = qxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_qxi(qxi = qxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_qxi(qxi = qxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_qxi <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxi * ut_desc[,"wt"])))
est_mean_ux <- estimate_ux(rxx = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], rxx_restricted = TRUE)
est_var_ux <- estimate_var_ux_rxxi(rxxi = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_rxxi(rxxi = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_rxxi(rxxi = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_rxxi <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxi * ut_desc[,"wt"])))
est_ux_desc_qxi <- zapsmall((est_ux_desc_qxi + est_ux_desc_rxxi) / 2)
}else{
est_ux_desc_qxi <- filler
}
if(nrow(qxa_desc) > 0 & nrow(ut_desc) > 0){
est_mean_ux <- estimate_ux(rxx = qxa_desc[,"mean"]^2, ut = ut_desc[,"mean"], rxx_restricted = FALSE)
est_var_ux <- estimate_var_ux_qxa(qxa = qxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_qxa(qxa = qxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_qxa(qxa = qxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_qxa <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxa * ut_desc[,"wt"])))
est_mean_ux <- estimate_ux(rxx = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], rxx_restricted = FALSE)
est_var_ux <- estimate_var_ux_rxxa(rxxa = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_rxxa(rxxa = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_rxxa(rxxa = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_rxxa <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxa * ut_desc[,"wt"])))
est_ux_desc_qxa <- zapsmall((est_ux_desc_qxa + est_ux_desc_rxxa) / 2)
}else{
est_ux_desc_qxa <- filler
}
}else{
est_ux_desc_qxi <- est_ux_desc_qxa <- filler
}
if(estimate_ut){
if(nrow(qxi_desc) > 0 & nrow(ux_desc) > 0){
est_mean_ut <- estimate_ut(rxx = qxi_desc[,"mean"]^2, ux = ux_desc[,"mean"], rxx_restricted = TRUE)
est_var_ut <- estimate_var_ut_qxi(qxi = qxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_qxi(qxi = qxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_qxi(qxi = qxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_qxi <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxi * ux_desc[,"wt"])))
est_mean_ut <- estimate_ut(rxx = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], rxx_restricted = TRUE)
est_var_ut <- estimate_var_ut_rxxi(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_rxxi(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_rxxi(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_rxxi <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxi * ux_desc[,"wt"])))
est_ut_desc_qxi <- zapsmall((est_ut_desc_qxi + est_ut_desc_rxxi) / 2)
}else{
est_ut_desc_qxi <- filler
}
if(nrow(qxa_desc) > 0 & nrow(ux_desc) > 0){
est_mean_ut <- estimate_ut(rxx = qxa_desc[,"mean"]^2, ux = ux_desc[,"mean"], rxx_restricted = FALSE)
est_var_ut <- estimate_var_ut_qxa(qxa = qxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_qxa(qxa = qxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_qxa(qxa = qxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_qxa <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxa * ux_desc[,"wt"])))
est_mean_ut <- estimate_ut(rxx = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], rxx_restricted = FALSE)
est_var_ut <- estimate_var_ut_rxxi(rxxi = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_rxxi(rxxi = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_rxxi(rxxi = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_rxxa <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxa * ux_desc[,"wt"])))
est_ut_desc_qxa <- zapsmall((est_ut_desc_qxa + est_ut_desc_rxxa) / 2)
}else{
est_ut_desc_qxa <- filler
}
}else{
est_ut_desc_qxi <- est_ut_desc_qxa <- filler
}
summarize_ad <- function(desc_mat, var_unbiased){
if(nrow(desc_mat) > 0){
c(mean = wt_mean(x = desc_mat[,"mean"], wt = desc_mat[,"wt"]),
var = wt_mean(x = desc_mat[,"var"], wt = desc_mat[,"wt"]) + wt_var(x = desc_mat[,"mean"], wt = desc_mat[,"wt"], unbiased = FALSE),
var_e = wt_mean(x = desc_mat[,"var_e"], wt = desc_mat[,"wt"]),
var_res = wt_mean(x = desc_mat[,"var_res"], wt = desc_mat[,"wt"]) + wt_var(x = desc_mat[,"mean"], wt = desc_mat[,"wt"], unbiased = FALSE))
}else{
NULL
}
}
out <- rbind(qxa_irr = summarize_ad(rbind(qxa_desc, est_qxa_desc_ux_irr, est_qxa_desc_ut_irr), var_unbiased = var_unbiased),
qxa_drr = summarize_ad(rbind(qxa_desc, est_qxa_desc_ux_drr_c, est_qxa_desc_ux_drr_m,
est_qxa_desc_ut_drr_c, est_qxa_desc_ut_drr_m), var_unbiased = var_unbiased),
qxi_irr = summarize_ad(rbind(qxi_desc, est_qxi_desc_ux_irr, est_qxi_desc_ut_irr), var_unbiased = var_unbiased),
qxi_drr = summarize_ad(rbind(qxi_desc, est_qxi_desc_ux_drr_c, est_qxi_desc_ux_drr_m,
est_qxi_desc_ut_drr_c, est_qxi_desc_ut_drr_m), var_unbiased = var_unbiased),
rxxa_irr = summarize_ad(rbind(rxxa_desc, est_rxxa_desc_ux_irr, est_rxxa_desc_ut_irr), var_unbiased = var_unbiased),
rxxa_drr = summarize_ad(rbind(rxxa_desc, est_rxxa_desc_ux_drr_c, est_rxxa_desc_ux_drr_m,
est_rxxa_desc_ut_drr_c, est_rxxa_desc_ut_drr_m), var_unbiased = var_unbiased),
rxxi_irr = summarize_ad(rbind(rxxi_desc, est_rxxi_desc_ux_irr, est_rxxi_desc_ut_irr), var_unbiased = var_unbiased),
rxxi_drr = summarize_ad(rbind(rxxi_desc, est_rxxi_desc_ux_drr_c, est_rxxi_desc_ux_drr_m,
est_rxxi_desc_ut_drr_c, est_rxxi_desc_ut_drr_m), var_unbiased = var_unbiased),
ux = summarize_ad(rbind(ux_desc, est_ux_desc_qxi, est_ux_desc_qxa), var_unbiased = var_unbiased),
ut = summarize_ad(rbind(ut_desc, est_ut_desc_qxi, est_ut_desc_qxa), var_unbiased = var_unbiased))
out[,"var_res"] <- out[,"var"] - out[,"var_e"]
out[,"var_res"][out[,"var_res"] < 0] <- 0
if(is.null(out)){
out <- matrix(0, 0, 4)
colnames(out) <- c("mean", "var", "var_e", "var_res")
}
valid_rxxa_irr <- any(grepl(x = rownames(out), pattern = "qxa_irr"))
valid_rxxa_drr <- any(grepl(x = rownames(out), pattern = "qxa_drr"))
valid_rxxi_irr <- any(grepl(x = rownames(out), pattern = "qxi_irr"))
valid_rxxi_drr <- any(grepl(x = rownames(out), pattern = "qxi_drr"))
valid_ux <- any(grepl(x = rownames(out), pattern = "ux"))
valid_ut <- any(grepl(x = rownames(out), pattern = "ut"))
if(!valid_rxxa_irr) out <- rbind(out, qxa_irr = c(1, 0, 0, 0), rxxa_irr = c(1, 0, 0, 0))
if(!valid_rxxa_drr) out <- rbind(out, qxa_drr = c(1, 0, 0, 0), rxxa_drr = c(1, 0, 0, 0))
if(!valid_rxxi_irr) out <- rbind(out, qxi_irr = c(1, 0, 0, 0), rxxi_irr = c(1, 0, 0, 0))
if(!valid_rxxi_drr) out <- rbind(out, qxi_drr = c(1, 0, 0, 0), rxxi_drr = c(1, 0, 0, 0))
if(!valid_ux) out <- rbind(out, ux = c(1, 0, 0, 0))
if(!valid_ut) out <- rbind(out, ut = c(1, 0, 0, 0))
if(valid_rxxa_irr) if(is.na(out["qxa_irr",1])) valid_rxxa_irr <- FALSE
if(valid_rxxa_drr) if(is.na(out["qxa_drr",1])) valid_rxxa_drr <- FALSE
if(valid_rxxi_irr) if(is.na(out["qxi_irr",1])) valid_rxxi_irr <- FALSE
if(valid_rxxi_drr) if(is.na(out["qxi_drr",1])) valid_rxxi_drr <- FALSE
if(valid_ux) if(is.na(out["ux",1])) valid_ux <- FALSE
if(valid_ut) if(is.na(out["ut",1])) valid_ut <- FALSE
out[is.na(out[,1]),1] <- 1
out[is.na(out[,2]),2] <- 0
out[is.na(out[,3]),3] <- 0
out[is.na(out[,4]),4] <- 0
out <- out[c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut"),]
ad_contents <- c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut")[c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr,
valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)]
if(sum(c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)) == 0) ad_contents <- "NULL"
.valid_rxxa <- filter_rel(rel_vec = rxxa, wt_vec = wt_rxxa)
.valid_rxxi <- filter_rel(rel_vec = rxxi, wt_vec = wt_rxxi)
.valid_ux <- filter_u(u_vec = ux, wt_vec = wt_ux)
.valid_ut <- filter_u(u_vec = ut, wt_vec = wt_ut)
summary_mat <- cbind(k_obs = c(length(rxxa[.valid_rxxa]), length(rxxa[.valid_rxxa]), length(rxxi[.valid_rxxi]), length(rxxi[.valid_rxxi]),
length(rxxa[.valid_rxxa]), length(rxxa[.valid_rxxa]), length(rxxi[.valid_rxxi]), length(rxxi[.valid_rxxi]),
length(ux[.valid_ux]), length(ut[.valid_ut])),
N_obs = c(sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE),
sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE),
sum(ni_ux[.valid_ux], na.rm = TRUE), sum(ni_ut[.valid_ut], na.rm = TRUE)),
L_dists = c(length(c(mean_qxa, mean_rxxa)), length(c(mean_qxa, mean_rxxa)), length(c(mean_qxi, mean_rxxi)), length(c(mean_qxi, mean_rxxi)),
length(c(mean_qxa, mean_rxxa)), length(c(mean_qxa, mean_rxxa)), length(c(mean_qxi, mean_rxxi)), length(c(mean_qxi, mean_rxxi)),
length(mean_ux), length(mean_ut)),
k_dists = c(sum(c(k_qxa, k_rxxa)), sum(c(k_qxa, k_rxxa)), sum(c(k_qxi, k_rxxi)), sum(c(k_qxi, k_rxxi)),
sum(c(k_qxa, k_rxxa)), sum(c(k_qxa, k_rxxa)), sum(c(k_qxi, k_rxxi)), sum(c(k_qxi, k_rxxi)),
sum(k_ux), sum(k_ut)),
N_dists = c(sum(c(N_qxa, N_rxxa)), sum(c(N_qxa, N_rxxa)), sum(c(N_qxi, N_rxxi)), sum(c(N_qxi, N_rxxi)),
sum(c(N_qxa, N_rxxa)), sum(c(N_qxa, N_rxxa)), sum(c(N_qxi, N_rxxi)), sum(c(N_qxi, N_rxxi)),
sum(Ni_ux), sum(Ni_ut))
)
rownames(summary_mat) <- c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut")
.summary_mat <- summary_mat
if(estimate_rxxa){
summary_mat[c("qxa_irr", "qxa_drr"),] <- .summary_mat[c("qxa_irr", "qxa_drr"),] + .summary_mat[c("qxi_irr", "qxi_drr"),]
summary_mat[c("rxxa_irr", "rxxa_drr"),] <- .summary_mat[c("rxxa_irr", "rxxa_drr"),] + .summary_mat[c("rxxi_irr", "rxxi_drr"),]
}
if(estimate_rxxi){
summary_mat[c("qxi_irr", "qxi_drr"),] <- .summary_mat[c("qxi_irr", "qxi_drr"),] + .summary_mat[c("qxa_irr", "qxa_drr"),]
summary_mat[c("rxxi_irr", "rxxi_drr"),] <- .summary_mat[c("rxxi_irr", "rxxi_drr"),] + .summary_mat[c("rxxa_irr", "rxxa_drr"),]
}
if(estimate_ux) summary_mat["ux",] <- .summary_mat["ux",] + .summary_mat["ut",]
if(estimate_ut) summary_mat["ut",] <- .summary_mat["ut",] + .summary_mat["ux",]
summary_mat <- cbind(k_total = apply(summary_mat[,c("k_obs", "k_dists")], 1, sum, na.rm = TRUE),
N_total = apply(summary_mat[,c("N_obs", "N_dists")], 1, sum, na.rm = TRUE),
summary_mat, out)
summary_mat <- cbind(summary_mat, sd = summary_mat[,"var"]^.5, sd_e = summary_mat[,"var_e"]^.5, sd_res = summary_mat[,"var_res"]^.5,
reliability = summary_mat[,"var_res"] / summary_mat[,"var"])
out <- out[,c("mean", "var", "var_res")]
attributes(out) <- append(attributes(out), list(summary = summary_mat, ad_contents = ad_contents))
out
}
out <- est_summaries(qxi_desc = qxi_desc, qxa_desc = qxa_desc,
rxxi_desc = rxxi_desc, rxxa_desc = rxxa_desc,
qxi_desc_c = qxi_desc_c, qxa_desc_c = qxa_desc_c,
rxxi_desc_c = rxxi_desc_c, rxxa_desc_c = rxxa_desc_c,
qxi_desc_m = qxi_desc_m, qxa_desc_m = qxa_desc_m,
rxxi_desc_m = rxxi_desc_m, rxxa_desc_m = rxxa_desc_m,
ux_desc = ux_desc, ut_desc = ut_desc,
estimate_rxxa = estimate_rxxa, estimate_rxxi = estimate_rxxi,
estimate_ux = estimate_ux, estimate_ut = estimate_ut)
out_raw <- est_summaries(qxi_desc = qxi_desc, qxa_desc = qxa_desc,
rxxi_desc = rxxi_desc, rxxa_desc = rxxa_desc,
qxi_desc_c = qxi_desc_c, qxa_desc_c = qxa_desc_c,
rxxi_desc_c = rxxi_desc_c, rxxa_desc_c = rxxa_desc_c,
qxi_desc_m = qxi_desc_m, qxa_desc_m = qxa_desc_m,
rxxi_desc_m = rxxi_desc_m, rxxa_desc_m = rxxa_desc_m,
ux_desc = ux_desc, ut_desc = ut_desc,
estimate_rxxa = FALSE, estimate_rxxi = FALSE,
estimate_ux = FALSE, estimate_ut = FALSE)
attributes(out) <- append(attributes(out),
list(summary_raw = attributes(out_raw)$summary,
ad_contents_raw = attributes(out_raw)$ad_contents,
inputs = inputs))
class(out) <- c("ad_tsa", "matrix")
out
}
#' Create a tabular array of artifact information summarizing values and weights of values in an interactive artifact distribution
#'
#' This is an internal function that constructs a data frame of artifact estimates (in the Value column) and corresponding weights (in the Weight column), consolidated according to the specified number of digits used in rounding.
#'
#' @param art_vec Vector of artifact values (i.e., u ratios, reliability coefficients, square-root reliabilities).
#' @param wt_vec Vector for weights to assign to individual artifact values.
#' @param decimals Number of decimals to which artifact values should be rounded and consolidated.
#'
#' @return Data frame with two columns: One containing artifact values and the other containing weights associated with artifact values.
#'
#' @import dplyr
#' @examples
#' # .create_ad_int(art_vec = c(.8, .8, .9), wt_vec = c(100, 200, 100), decimals = 2)
#'
#' @keywords internal
.create_ad_int <- function(art_vec, wt_vec = rep(1, length(art_vec)), decimals = Inf){
if(is.null(art_vec) | is.null(wt_vec) | length(art_vec) == 0 | length(wt_vec) == 0){
data.frame(Value = 1, Weight = 1, stringsAsFactors = FALSE)
}else{
if(all(is.na(art_vec))){
data.frame(Value = 1, Weight = 1)
}else{
if(length(art_vec) != length(wt_vec)) stop("Lengths of art_vec and wt_vec differ")
art_tab <- data.frame(Value = round(art_vec, decimals), Weight = wt_vec, stringsAsFactors = FALSE)
art_tab <- as.data.frame(ungroup(art_tab %>% group_by(.data$Value) %>% do(data.frame(Value = .data$Value[1], Weight = sum(.data$Weight), stringsAsFactors = FALSE))), stringsAsFactors = FALSE)
art_tab <- art_tab[!is.na(art_tab[,1]),]
art_tab[,"Weight"] <- art_tab[,"Weight"] / sum(art_tab[,"Weight"])
art_tab
}
}
}
create_ad_unprocessed <- function(rxxi = NULL, n_rxxi = NULL, wt_rxxi = n_rxxi, rxxi_type = rep("alpha", length(rxxi)), k_items_rxxi = rep(NA, length(rxxi)),
mean_qxi = NULL, var_qxi = NULL, k_qxi = NULL, mean_n_qxi = NULL, qxi_dist_type = rep("alpha", length(mean_qxi)), mean_k_items_qxi = rep(NA, length(mean_qxi)),
mean_rxxi = NULL, var_rxxi = NULL, k_rxxi = NULL, mean_n_rxxi = NULL, rxxi_dist_type = rep("alpha", length(mean_rxxi)), mean_k_items_rxxi = rep(NA, length(mean_rxxi)),
rxxa = NULL, n_rxxa = NULL, wt_rxxa = n_rxxa, rxxa_type = rep("alpha", length(rxxa)), k_items_rxxa = rep(NA, length(rxxa)),
mean_qxa = NULL, var_qxa = NULL, k_qxa = NULL, mean_n_qxa = NULL, qxa_dist_type = rep("alpha", length(mean_qxa)), mean_k_items_qxa = rep(NA, length(mean_qxa)),
mean_rxxa = NULL, var_rxxa = NULL, k_rxxa = NULL, mean_n_rxxa = NULL, rxxa_dist_type = rep("alpha", length(mean_rxxa)), mean_k_items_rxxa = rep(NA, length(mean_rxxa)),
ux = NULL, ni_ux = NULL, na_ux = NULL, wt_ux = ni_ux, dep_sds_ux_obs = FALSE,
mean_ux = NULL, var_ux = NULL, k_ux = NULL, mean_ni_ux = NULL, mean_na_ux = NA, dep_sds_ux_spec = FALSE,
ut = NULL, ni_ut = NULL, na_ut = NULL, wt_ut = ni_ut, dep_sds_ut_obs = FALSE,
mean_ut = NULL, var_ut = NULL, k_ut = NULL, mean_ni_ut = NULL, mean_na_ut = NA, dep_sds_ut_spec = FALSE, ...){
if(length(rxxi) > 0){
if(length(n_rxxi) == 0){
n_rxxi <- rep(NA, length(rxxi))
if(length(wt_rxxi) == 0){
wt_rxxi <- rep(1, length(rxxi))
}else{
if(length(wt_rxxi) != length(rxxi))
stop("When wt_rxxi is not NULL, the lengths of rxxi and wt_rxxi must be equal", call. = FALSE)
}
}else{
if(length(n_rxxi) != length(rxxi))
stop("When n_rxxi is not NULL, the lengths of rxxi and n_rxxi must be equal", call. = FALSE)
if(length(wt_rxxi) == 0)
wt_rxxi <- n_rxxi
}
if(length(rxxi_type) == 0){
rxxi_type <- rep("alpha", length(rxxi))
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(rxxi_type) == 1)
rxxi_type <- rep(rxxi_type, length(rxxi))
if(length(rxxi_type) != length(rxxi))
stop("When rxxi_type is not length 1, the lengths of rxxi and rxxi_type must be equal", call. = FALSE)
}
if(length(k_items_rxxi) == 0){
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(k_items_rxxi) == 1)
k_items_rxxi <- rep(k_items_rxxi, length(rxxi))
if(length(k_items_rxxi) != length(rxxi))
stop("When k_items_rxxi is not length 1, the lengths of rxxi and k_items_rxxi must be equal", call. = FALSE)
}
}else{
n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(length(rxxa) > 0){
if(length(n_rxxa) == 0){
n_rxxa <- rep(NA, length(rxxa))
if(length(wt_rxxa) == 0){
wt_rxxa <- rep(1, length(rxxa))
}else{
if(length(wt_rxxa) != length(rxxa))
stop("When wt_rxxa is not NULL, the lengths of rxxa and wt_rxxa must be equal", call. = FALSE)
}
}else{
if(length(n_rxxa) != length(rxxa))
stop("When n_rxxa is not NULL, the lengths of rxxa and n_rxxa must be equal", call. = FALSE)
if(length(wt_rxxa) == 0)
wt_rxxa <- n_rxxa
}
if(length(rxxa_type) == 0){
rxxa_type <- rep("alpha", length(rxxa))
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(rxxa_type) == 1)
rxxa_type <- rep(rxxa_type, length(rxxa))
if(length(rxxa_type) != length(rxxa))
stop("When rxxa_type is not length 1, the lengths of rxxa and rxxa_type must be equal", call. = FALSE)
}
if(length(k_items_rxxa) == 0){
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(k_items_rxxa) == 1)
k_items_rxxa <- rep(k_items_rxxa, length(rxxa))
if(length(k_items_rxxa) != length(rxxa))
stop("When k_items_rxxa is not length 1, the lengths of rxxa and k_items_rxxa must be equal", call. = FALSE)
}
}else{
n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(length(ux) > 0){
if(length(ni_ux) == 0){
ni_ux <- rep(NA, length(ux))
if(length(wt_ux) == 0){
wt_ux <- rep(1, length(ux))
}else{
if(length(wt_ux) != length(ux))
stop("When wt_ux is not NULL, the lengths of ux and wt_ux must be equal", call. = FALSE)
}
}else{
if(length(ni_ux) != length(ux))
stop("When ni_ux is not NULL, the lengths of ux and ni_ux must be equal", call. = FALSE)
if(length(wt_ux) == 0)
wt_ux <- ni_ux
}
if(length(na_ux) == 0){
na_ux <- rep(NA, length(ux))
}else{
if(length(na_ux) != length(ux))
stop("When na_ux is not NULL, the lengths of ux and na_ux must be equal", call. = FALSE)
}
if(length(dep_sds_ux_obs) == 0){
dep_sds_ux_obs <- rep(FALSE, length(ux))
}else{
if(length(dep_sds_ux_obs) == 1)
dep_sds_ux_obs <- rep(dep_sds_ux_obs, length(ux))
if(length(dep_sds_ux_obs) != length(ux))
stop("When dep_sds_ux_obs is not length 1, the lengths of ux and dep_sds_ux_obs must be equal", call. = FALSE)
}
}else{
ni_ux <- wt_ux <- na_ux <- dep_sds_ux_obs <- NULL
}
if(length(ut) > 0){
if(length(ni_ut) == 0){
ni_ut <- rep(NA, length(ut))
if(length(wt_ut) == 0){
wt_ut <- rep(1, length(ut))
}else{
if(length(wt_ut) != length(ut))
stop("When wt_ut is not NULL, the lengths of ut and wt_ut must be equal", call. = FALSE)
}
}else{
if(length(ni_ut) != length(ut))
stop("When ni_ut is not NULL, the lengths of ut and ni_ut must be equal", call. = FALSE)
if(length(wt_ut) == 0)
wt_ut <- ni_ut
}
if(length(na_ut) == 0){
na_ut <- rep(NA, length(ut))
}else{
if(length(na_ut) != length(ut))
stop("When na_ut is not NULL, the lengths of ut and na_ut must be equal", call. = FALSE)
}
if(length(dep_sds_ut_obs) == 0){
dep_sds_ut_obs <- rep(FALSE, length(ut))
}else{
if(length(dep_sds_ut_obs) == 1)
dep_sds_ut_obs <- rep(dep_sds_ut_obs, length(ut))
if(length(dep_sds_ut_obs) != length(ut))
stop("When dep_sds_ut_obs is not length 1, the lengths of ut and dep_sds_ut_obs must be equal", call. = FALSE)
}
}else{
ni_ut <- wt_ut <- na_ut <- dep_sds_ut_obs <- NULL
}
list(rxxi = rxxi, n_rxxi = n_rxxi, wt_rxxi = wt_rxxi, rxxi_type = rxxi_type, k_items_rxxi = k_items_rxxi,
mean_qxi = mean_qxi, var_qxi = var_qxi, k_qxi = k_qxi, mean_n_qxi = mean_n_qxi, qxi_dist_type = qxi_dist_type, mean_k_items_qxi = mean_k_items_qxi,
mean_rxxi = mean_rxxi, var_rxxi = var_rxxi, k_rxxi = k_rxxi, mean_n_rxxi = mean_n_rxxi, rxxi_dist_type = rxxi_dist_type, mean_k_items_rxxi = mean_k_items_rxxi,
rxxa = rxxa, n_rxxa = n_rxxa, wt_rxxa = wt_rxxa, rxxa_type = rxxa_type, k_items_rxxa = k_items_rxxa,
mean_qxa = mean_qxa, var_qxa = var_qxa, k_qxa = k_qxa, mean_n_qxa = mean_n_qxa, qxa_dist_type = qxa_dist_type, mean_k_items_qxa = mean_k_items_qxa,
mean_rxxa = mean_rxxa, var_rxxa = var_rxxa, k_rxxa = k_rxxa, mean_n_rxxa = mean_n_rxxa, rxxa_dist_type = rxxa_dist_type, mean_k_items_rxxa = mean_k_items_rxxa,
ux = ux, ni_ux = ni_ux, na_ux = na_ux, wt_ux = wt_ux, dep_sds_ux_obs = dep_sds_ux_obs,
mean_ux = mean_ux, var_ux = var_ux, k_ux = k_ux, mean_ni_ux = mean_ni_ux, mean_na_ux = mean_na_ux, dep_sds_ux_spec = dep_sds_ux_spec,
ut = ut, ni_ut = ni_ut, na_ut = na_ut, wt_ut = wt_ut, dep_sds_ut_obs = dep_sds_ut_obs,
mean_ut = mean_ut, var_ut = var_ut, k_ut = k_ut, mean_ni_ut = mean_ni_ut, mean_na_ut = mean_na_ut, dep_sds_ut_spec = dep_sds_ut_spec,
...)
}
psychmeta/psychmeta documentation built on Feb. 12, 2024, 1:21 a.m.
R Package Documentation
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Defines functions create_ad_unprocessed .create_ad_int create_ad_tsa create_ad_int
Documented in .create_ad_int
create_ad_int <- function(rxxi = NULL, n_rxxi = NULL, wt_rxxi = n_rxxi,
rxxi_type = rep("alpha", length(rxxi)),
k_items_rxxi = rep(NA, length(rxxi)),
rxxa = NULL, n_rxxa = NULL, wt_rxxa = n_rxxa,
rxxa_type = rep("alpha", length(rxxa)),
k_items_rxxa = rep(NA, length(rxxa)),
ux = NULL, ni_ux = NULL, na_ux = NULL, wt_ux = ni_ux, dep_sds_ux_obs = FALSE,
ut = NULL, ni_ut = NULL, na_ut = NULL, wt_ut = ni_ut, dep_sds_ut_obs = FALSE,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE,
var_unbiased = TRUE, ...){
if(length(rxxi) > 0){
if(length(n_rxxi) == 0){
n_rxxi <- rep(NA, length(rxxi))
if(length(wt_rxxi) == 0){
wt_rxxi <- rep(1, length(rxxi))
}else{
if(length(wt_rxxi) != length(rxxi))
stop("When wt_rxxi is not NULL, the lengths of rxxi and wt_rxxi must be equal", call. = FALSE)
}
}else{
if(length(n_rxxi) != length(rxxi))
stop("When n_rxxi is not NULL, the lengths of rxxi and n_rxxi must be equal", call. = FALSE)
if(length(wt_rxxi) == 0)
wt_rxxi <- n_rxxi
}
if(length(rxxi_type) == 0){
rxxi_type <- rep("alpha", length(rxxi))
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(rxxi_type) == 1)
rxxi_type <- rep(rxxi_type, length(rxxi))
if(length(rxxi_type) != length(rxxi))
stop("When rxxi_type is not length 1, the lengths of rxxi and rxxi_type must be equal", call. = FALSE)
}
if(length(k_items_rxxi) == 0){
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(k_items_rxxi) == 1)
k_items_rxxi <- rep(k_items_rxxi, length(rxxi))
if(length(k_items_rxxi) != length(rxxi))
stop("When k_items_rxxi is not length 1, the lengths of rxxi and k_items_rxxi must be equal", call. = FALSE)
}
}else{
n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(length(rxxa) > 0){
if(length(n_rxxa) == 0){
n_rxxa <- rep(NA, length(rxxa))
if(length(wt_rxxa) == 0){
wt_rxxa <- rep(1, length(rxxa))
}else{
if(length(wt_rxxa) != length(rxxa))
stop("When wt_rxxa is not NULL, the lengths of rxxa and wt_rxxa must be equal", call. = FALSE)
}
}else{
if(length(n_rxxa) != length(rxxa))
stop("When n_rxxa is not NULL, the lengths of rxxa and n_rxxa must be equal", call. = FALSE)
if(length(wt_rxxa) == 0)
wt_rxxa <- n_rxxa
}
if(length(rxxa_type) == 0){
rxxa_type <- rep("alpha", length(rxxa))
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(rxxa_type) == 1)
rxxa_type <- rep(rxxa_type, length(rxxa))
if(length(rxxa_type) != length(rxxa))
stop("When rxxa_type is not length 1, the lengths of rxxa and rxxa_type must be equal", call. = FALSE)
}
if(length(k_items_rxxa) == 0){
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(k_items_rxxa) == 1)
k_items_rxxa <- rep(k_items_rxxa, length(rxxa))
if(length(k_items_rxxa) != length(rxxa))
stop("When k_items_rxxa is not length 1, the lengths of rxxa and k_items_rxxa must be equal", call. = FALSE)
}
}else{
n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(length(ux) > 0){
if(length(ni_ux) == 0){
ni_ux <- rep(NA, length(ux))
if(length(wt_ux) == 0){
wt_ux <- rep(1, length(ux))
}else{
if(length(wt_ux) != length(ux))
stop("When wt_ux is not NULL, the lengths of ux and wt_ux must be equal", call. = FALSE)
}
}else{
if(length(ni_ux) != length(ux))
stop("When ni_ux is not NULL, the lengths of ux and ni_ux must be equal", call. = FALSE)
if(length(wt_ux) == 0)
wt_ux <- ni_ux
}
if(length(na_ux) == 0){
na_ux <- rep(NA, length(ux))
}else{
if(length(na_ux) != length(ux))
stop("When na_ux is not NULL, the lengths of ux and na_ux must be equal", call. = FALSE)
}
if(length(dep_sds_ux_obs) == 0){
dep_sds_ux_obs <- rep(FALSE, length(ux))
}else{
if(length(dep_sds_ux_obs) == 1)
dep_sds_ux_obs <- rep(dep_sds_ux_obs, length(ux))
if(length(dep_sds_ux_obs) != length(ux))
stop("When dep_sds_ux_obs is not length 1, the lengths of ux and dep_sds_ux_obs must be equal", call. = FALSE)
}
}else{
ni_ux <- wt_ux <- na_ux <- dep_sds_ux_obs <- NULL
}
if(length(ut) > 0){
if(length(ni_ut) == 0){
ni_ut <- rep(NA, length(ut))
if(length(wt_ut) == 0){
wt_ut <- rep(1, length(ut))
}else{
if(length(wt_ut) != length(ut))
stop("When wt_ut is not NULL, the lengths of ut and wt_ut must be equal", call. = FALSE)
}
}else{
if(length(ni_ut) != length(ut))
stop("When ni_ut is not NULL, the lengths of ut and ni_ut must be equal", call. = FALSE)
if(length(wt_ut) == 0)
wt_ut <- ni_ut
}
if(length(na_ut) == 0){
na_ut <- rep(NA, length(ut))
}else{
if(length(na_ut) != length(ut))
stop("When na_ut is not NULL, the lengths of ut and na_ut must be equal", call. = FALSE)
}
if(length(dep_sds_ut_obs) == 0){
dep_sds_ut_obs <- rep(FALSE, length(ut))
}else{
if(length(dep_sds_ut_obs) == 1)
dep_sds_ut_obs <- rep(dep_sds_ut_obs, length(ut))
if(length(dep_sds_ut_obs) != length(ut))
stop("When dep_sds_ut_obs is not length 1, the lengths of ut and dep_sds_ut_obs must be equal", call. = FALSE)
}
}else{
ni_ut <- wt_ut <- na_ut <- dep_sds_ut_obs <- NULL
}
inputs <- list(rxxi = rxxi, n_rxxi = n_rxxi, wt_rxxi = wt_rxxi, rxxi_type = rxxi_type, k_items_rxxi = k_items_rxxi,
rxxa = rxxa, n_rxxa = n_rxxa, wt_rxxa = wt_rxxa, rxxa_type = rxxa_type, k_items_rxxa = k_items_rxxa,
ux = ux, ni_ux = ni_ux, na_ux = na_ux, wt_ux = wt_ux, dep_sds_ux_obs = dep_sds_ux_obs,
ut = ut, ni_ut = ni_ut, na_ut = na_ut, wt_ut = wt_ut, dep_sds_ut_obs = dep_sds_ut_obs,
...)
if(is.null(wt_rxxi)) wt_rxxi <- rep(1, length(rxxi))
if(is.null(wt_rxxa)) wt_rxxa <- rep(1, length(rxxa))
if(is.null(wt_ux)) wt_ux <- rep(1, length(ux))
if(is.null(wt_ut)) wt_ut <- rep(1, length(ut))
art_mean <- function(art_vec, wt_vec, null_value = NULL){
if(!is.null(art_vec) & !is.null(wt_vec)){
wt_mean(x = art_vec, wt = wt_vec)
}else{
null_value
}
}
art_var <- function(art_vec, wt_vec, null_value = NULL, var_unbiased = TRUE){
if(!is.null(art_vec) & !is.null(wt_vec)){
wt_var(x = art_vec, wt = wt_vec, unbiased = var_unbiased)
}else{
null_value
}
}
if(!is.null(rxxa)){
filtered_rxxa <- filter_rel(rel_vec = rxxa, wt_vec = wt_rxxa)
rxxa_type <- as.character(rxxa_type)
if(length(rxxa_type) == 1) rxxa_type <- rep(rxxa_type, length(rxxa))
if(!is.null(n_rxxa)) n_rxxa <- n_rxxa[filtered_rxxa]
rxxa <- rxxa[filtered_rxxa]
wt_rxxa <- wt_rxxa[filtered_rxxa]
rxxa_type <- rxxa_type[filtered_rxxa]
if(!is.null(k_items_rxxa)) k_items_rxxa <- k_items_rxxa[filtered_rxxa]
if(length(rxxa) == 0) rxxa <- n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(!is.null(rxxi)){
filtered_rxxi <- filter_rel(rel_vec = rxxi, wt_vec = wt_rxxi)
rxxi_type <- as.character(rxxi_type)
if(length(rxxi_type) == 1) rxxi_type <- rep(rxxi_type, length(rxxi))
if(!is.null(n_rxxi)) n_rxxi <- n_rxxi[filtered_rxxi]
rxxi <- rxxi[filtered_rxxi]
wt_rxxi <- wt_rxxi[filtered_rxxi]
rxxi_type <- rxxi_type[filtered_rxxi]
if(!is.null(k_items_rxxi)) k_items_rxxi <- k_items_rxxi[filtered_rxxi]
if(length(rxxi) == 0) rxxi <- n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(!is.null(ux)){
filtered_ux <- filter_u(u_vec = ux, wt_vec = wt_ux)
if(!is.null(ni_ux)) ni_ux <- ni_ux[filtered_ux]
if(!is.null(na_ux)) na_ux <- na_ux[filtered_ux]
if(!is.null(dep_sds_ux_obs)) dep_sds_ux_obs <- dep_sds_ux_obs[filtered_ux]
ux <- ux[filtered_ux]
wt_ux <- wt_ux[filtered_ux]
if(length(ux) == 0) ux <- ni_ux <- na_ux <- wt_ux <- dep_sds_ux_obs <- NULL
}
if(!is.null(ut)){
filtered_ut <- filter_u(u_vec = ut, wt_vec = wt_ut)
if(!is.null(ni_ut)) ni_ut <- ni_ut[filtered_ut]
if(!is.null(na_ut)) na_ut <- na_ut[filtered_ut]
if(!is.null(dep_sds_ut_obs)) dep_sds_ut_obs <- dep_sds_ut_obs[filtered_ut]
ut <- ut[filtered_ut]
wt_ut <- wt_ut[filtered_ut]
if(length(ut) == 0) ut <- ni_ut <- na_ut <- wt_ut <- dep_sds_ut_obs <- NULL
}
.replace_null <- function(x){
if(length(x) == 0){
NULL
}else{
x
}
}
qxa_mean <- art_mean(art_vec = rxxa^.5, wt_vec = wt_rxxa)
qxi_mean <- art_mean(art_vec = rxxi^.5, wt_vec = wt_rxxi)
rxxa_mean <- art_mean(art_vec = rxxa, wt_vec = wt_rxxa)
rxxi_mean <- art_mean(art_vec = rxxi, wt_vec = wt_rxxi)
qxa_var <- art_var(art_vec = rxxa^.5, wt_vec = wt_rxxa, var_unbiased = var_unbiased)
qxi_var <- art_var(art_vec = rxxi^.5, wt_vec = wt_rxxi, var_unbiased = var_unbiased)
rxxa_var <- art_var(art_vec = rxxa, wt_vec = wt_rxxa, var_unbiased = var_unbiased)
rxxi_var <- art_var(art_vec = rxxi, wt_vec = wt_rxxi, var_unbiased = var_unbiased)
ux_mean <- art_mean(art_vec = ux, wt_vec = wt_ux)
ut_mean <- art_mean(art_vec = ut, wt_vec = wt_ut)
if(!is.null(rxxa)){
if(!is.null(n_rxxa)) if(all(is.na(n_rxxa))) n_rxxa <- NULL
if(!is.null(n_rxxa)){
mean_n_rxxa <- mean(n_rxxa, na.rm = TRUE)
var_e_rxxa <- var_error_rel(rel = rxxa_mean, n = n_rxxa, rel_type = rxxa_type, k_items = k_items_rxxa)
var_e_rxxa <- wt_mean(x = var_e_rxxa, wt = n_rxxa)
var_e_qxa <- var_error_q(q = qxa_mean, n = n_rxxa, rel_type = rxxa_type, k_items = k_items_rxxa)
var_e_qxa <- wt_mean(x = var_e_qxa, wt = n_rxxa)
}else{
mean_n_rxxa <- NULL
var_e_rxxa <- var_e_qxa <- 0
}
rxxa_consistency <- convert_reltype2consistency(rel_type = rxxa_type)
if(any(rxxa_consistency)){
rxxa_c <- .replace_null(x = rxxa[rxxa_consistency])
wt_rxxa_c <- .replace_null(x = wt_rxxa[rxxa_consistency])
n_rxxa_c <- .replace_null(x = n_rxxa[rxxa_consistency])
qxa_mean_c <- art_mean(art_vec = rxxa_c^.5, wt_vec = wt_rxxa_c)
rxxa_mean_c <- art_mean(art_vec = rxxa_c, wt_vec = wt_rxxa_c)
qxa_var_c <- art_var(art_vec = rxxa_c^.5, wt_vec = wt_rxxa_c, var_unbiased = var_unbiased)
rxxa_var_c <- art_var(art_vec = rxxa_c, wt_vec = wt_rxxa_c, var_unbiased = var_unbiased)
if(!is.null(n_rxxa_c)){
mean_n_rxxa_c <- mean(n_rxxa_c, na.rm = TRUE)
rxxa_type_c <- .replace_null(x = rxxa_type[rxxa_consistency])
k_items_rxxa_c <- .replace_null(x = k_items_rxxa[rxxa_consistency])
var_e_rxxa_c <- var_error_rel(rel = rxxa_mean_c, n = n_rxxa_c, rel_type = rxxa_type_c, k_items = k_items_rxxa_c)
var_e_rxxa_c <- wt_mean(x = var_e_rxxa_c, wt = n_rxxa_c)
var_e_qxa_c <- var_error_q(q = qxa_mean_c, n = n_rxxa_c, rel_type = rxxa_type_c, k_items = k_items_rxxa_c)
var_e_qxa_c <- wt_mean(x = var_e_qxa_c, wt = n_rxxa_c)
}else{
mean_n_rxxa_c <- NULL
var_e_rxxa_c <- var_e_qxa_c <- 0
}
}else{
qxa_mean_c <- rxxa_mean_c <- qxa_var_c <- rxxa_var_c <- NULL
rxxa_c <- wt_rxxa_c <- NULL
var_e_rxxa_c <- var_e_qxa_c <- NULL
}
if(any(!rxxa_consistency)){
rxxa_m <- .replace_null(x = rxxa[!rxxa_consistency])
wt_rxxa_m <- .replace_null(x = wt_rxxa[!rxxa_consistency])
n_rxxa_m <- .replace_null(x = n_rxxa[!rxxa_consistency])
qxa_mean_m <- art_mean(art_vec = rxxa_m^.5, wt_vec = wt_rxxa_m)
rxxa_mean_m <- art_mean(art_vec = rxxa_m, wt_vec = wt_rxxa_m)
qxa_var_m <- art_var(art_vec = rxxa_m^.5, wt_vec = wt_rxxa_m, var_unbiased = var_unbiased)
rxxa_var_m <- art_var(art_vec = rxxa_m, wt_vec = wt_rxxa_m, var_unbiased = var_unbiased)
if(!is.null(n_rxxa_m)){
mean_n_rxxa_m <- mean(n_rxxa_m, na.rm = TRUE)
rxxa_type_m <- .replace_null(x = rxxa_type[!rxxa_consistency])
k_items_rxxa_m <- .replace_null(x = k_items_rxxa[!rxxa_consistency])
var_e_rxxa_m <- var_error_rel(rel = rxxa_mean_m, n = n_rxxa_m, rel_type = rxxa_type_m, k_items = k_items_rxxa_m)
var_e_rxxa_m <- wt_mean(x = var_e_rxxa_m, wt = n_rxxa_m)
var_e_qxa_m <- var_error_q(q = qxa_mean_m, n = n_rxxa_m, rel_type = rxxa_type_m, k_items = k_items_rxxa_m)
var_e_qxa_m <- wt_mean(x = var_e_qxa_m, wt = n_rxxa_m)
}else{
mean_n_rxxa_m <- NULL
var_e_rxxa_m <- var_e_qxa_m <- 0
}
}else{
qxa_mean_m <- rxxa_mean_m <- qxa_var_m <- rxxa_var_m <- NULL
rxxa_m <- wt_rxxa_m <- NULL
var_e_rxxa_m <- var_e_qxa_m <- NULL
}
}else{
qxa_mean_c <- rxxa_mean_c <- qxa_var_c <- rxxa_var_c <- NULL
qxa_mean_m <- rxxa_mean_m <- qxa_var_m <- rxxa_var_m <- NULL
rxxa_c <- wt_rxxa_c <- NULL
rxxa_m <- wt_rxxa_m <- NULL
var_e_rxxa <- var_e_rxxa_c <- var_e_rxxa_m <- NULL
var_e_qxa <- var_e_qxa_c <- var_e_qxa_m <- NULL
}
if(!is.null(rxxi)){
if(!is.null(n_rxxi)) if(all(is.na(n_rxxi))) n_rxxi <- NULL
if(!is.null(n_rxxi)){
mean_n_rxxi <- mean(n_rxxi, na.rm = TRUE)
var_e_rxxi <- var_error_rel(rel = rxxi_mean, n = n_rxxi, rel_type = rxxi_type, k_items = k_items_rxxi)
var_e_rxxi <- wt_mean(x = var_e_rxxi, wt = n_rxxi)
var_e_qxi <- var_error_q(q = qxi_mean, n = n_rxxi, rel_type = rxxi_type, k_items = k_items_rxxi)
var_e_qxi <- wt_mean(x = var_e_qxi, wt = n_rxxi)
}else{
mean_n_rxxi <- NULL
var_e_rxxi <- var_e_qxi <- 0
}
rxxi_consistency <- convert_reltype2consistency(rel_type = rxxi_type)
if(any(rxxi_consistency)){
rxxi_c <- .replace_null(x = rxxi[rxxi_consistency])
wt_rxxi_c <- .replace_null(x = wt_rxxi[rxxi_consistency])
n_rxxi_c <- .replace_null(x = n_rxxi[rxxi_consistency])
qxi_mean_c <- art_mean(art_vec = rxxi_c^.5, wt_vec = wt_rxxi_c)
rxxi_mean_c <- art_mean(art_vec = rxxi_c, wt_vec = wt_rxxi_c)
qxi_var_c <- art_var(art_vec = rxxi_c^.5, wt_vec = wt_rxxi_c, var_unbiased = var_unbiased)
rxxi_var_c <- art_var(art_vec = rxxi_c, wt_vec = wt_rxxi_c, var_unbiased = var_unbiased)
if(!is.null(n_rxxi_c)){
mean_n_rxxi_c <- mean(n_rxxi_c, na.rm = TRUE)
rxxi_type_c <- .replace_null(x = rxxi_type[rxxi_consistency])
k_items_rxxi_c <- .replace_null(x = k_items_rxxi[rxxi_consistency])
var_e_rxxi_c <- var_error_rel(rel = rxxi_mean_c, n = n_rxxi_c, rel_type = rxxi_type_c, k_items = k_items_rxxi_c)
var_e_rxxi_c <- wt_mean(x = var_e_rxxi_c, wt = n_rxxi_c)
var_e_qxi_c <- var_error_q(q = qxi_mean_c, n = n_rxxi_c, rel_type = rxxi_type_c, k_items = k_items_rxxi_c)
var_e_qxi_c <- wt_mean(x = var_e_qxi_c, wt = n_rxxi_c)
}else{
mean_n_rxxi_c <- NULL
var_e_rxxi_c <- var_e_qxi_c <- 0
}
}else{
qxi_mean_c <- rxxi_mean_c <- qxi_var_c <- rxxi_var_c <- NULL
rxxi_c <- wt_rxxi_c <- NULL
var_e_rxxi_c <- var_e_qxi_c <- NULL
}
if(any(!rxxi_consistency)){
rxxi_m <- .replace_null(x = rxxi[!rxxi_consistency])
wt_rxxi_m <- .replace_null(x = wt_rxxi[!rxxi_consistency])
n_rxxi_m <- .replace_null(x = n_rxxi[!rxxi_consistency])
qxi_mean_m <- art_mean(art_vec = rxxi_m^.5, wt_vec = wt_rxxi_m)
rxxi_mean_m <- art_mean(art_vec = rxxi_m, wt_vec = wt_rxxi_m)
qxi_var_m <- art_var(art_vec = rxxi_m^.5, wt_vec = wt_rxxi_m, var_unbiased = var_unbiased)
rxxi_var_m <- art_var(art_vec = rxxi_m, wt_vec = wt_rxxi_m, var_unbiased = var_unbiased)
if(!is.null(n_rxxi_m)){
mean_n_rxxi_m <- mean(n_rxxi_m, na.rm = TRUE)
rxxi_type_m <- .replace_null(x = rxxi_type[!rxxi_consistency])
k_items_rxxi_m <- .replace_null(x = k_items_rxxi[!rxxi_consistency])
var_e_rxxi_m <- var_error_rel(rel = rxxi_mean_m, n = n_rxxi_m, rel_type = rxxi_type_m, k_items = k_items_rxxi_m)
var_e_rxxi_m <- wt_mean(x = var_e_rxxi_m, wt = n_rxxi_m)
var_e_qxi_m <- var_error_q(q = qxi_mean_m, n = n_rxxi_m, rel_type = rxxi_type_m, k_items = k_items_rxxi_m)
var_e_qxi_m <- wt_mean(x = var_e_qxi_m, wt = n_rxxi_m)
}else{
mean_n_rxxi_m <- NULL
var_e_rxxi_m <- var_e_qxi_m <- 0
}
}else{
qxi_mean_m <- rxxi_mean_m <- qxi_var_m <- rxxi_var_m <- NULL
rxxi_m <- wt_rxxi_m <- NULL
var_e_qxi_m <- var_e_rxxi_m <- NULL
}
}else{
qxi_mean_c <- rxxi_mean_c <- qxi_var_c <- rxxi_var_c <- NULL
qxi_mean_m <- rxxi_mean_m <- qxi_var_m <- rxxi_var_m <- NULL
rxxi_c <- wt_rxxi_c <- NULL
rxxi_m <- wt_rxxi_m <- NULL
var_e_rxxi <- var_e_rxxi_c <- var_e_rxxi_m <- NULL
var_e_qxi <- var_e_qxi_c <- var_e_qxi_m <- NULL
}
if(!is.null(ni_ux)) if(all(is.na(ni_ux))) ni_ux <- NULL
if(!is.null(na_ux)) if(all(is.na(na_ux))) na_ux <- NULL
if(!is.null(ni_ux)){
if(is.null(na_ux)) na_ux <- rep(NA, length(ni_ux))
if(is.null(dep_sds_ux_obs)) dep_sds_ux_obs <- rep(FALSE, length(dep_sds_ux_obs))
mean_ni_ux <- mean(ni_ux, na.rm = TRUE)
var_e_ux <- var_error_u(u = ux_mean, ni = ni_ux, na = na_ux, dependent_sds = dep_sds_ux_obs)
var_e_ux <- wt_mean(x = var_e_ux, wt = ni_ux)
}else{
mean_ni_ux <- NULL
var_e_ux <- NA
}
if(!is.null(ni_ut)) if(all(is.na(ni_ut))) ni_ut <- NULL
if(!is.null(na_ut)) if(all(is.na(na_ut))) na_ut <- NULL
if(!is.null(ni_ut)){
if(is.null(na_ut)) na_ut <- rep(NA, length(ni_ut))
if(is.null(dep_sds_ut_obs)) dep_sds_ut_obs <- rep(FALSE, length(dep_sds_ut_obs))
mean_ni_ut <- mean(ni_ut, na.rm = TRUE)
var_e_ut <- var_error_u(u = ut_mean, ni = ni_ut, na = na_ut, dependent_sds = dep_sds_ut_obs)
var_e_ut <- wt_mean(x = var_e_ut, wt = ni_ut)
}else{
mean_ni_ut <- NULL
var_e_ut <- NA
}
.arglist <- list(rxxa = rxxa,
n_rxxa = n_rxxa,
wt_rxxa = wt_rxxa,
rxxa_type = rxxa_type,
qxa_mean_c = qxa_mean_c,
rxxa_mean_c = rxxa_mean_c,
qxa_var_c = qxa_var_c,
rxxa_var_c = rxxa_var_c,
qxa_mean_m = qxa_mean_m,
rxxa_mean_m = rxxa_mean_m,
qxa_var_m = qxa_var_m,
rxxa_var_m = rxxa_var_m,
qxa_mean = qxa_mean,
rxxa_mean = rxxa_mean,
qxa_var = qxa_var,
rxxa_var = rxxa_var,
rxxa_c = rxxa_c,
wt_rxxa_c = wt_rxxa_c,
rxxa_m = rxxa_m,
wt_rxxa_m = wt_rxxa_m,
var_e_rxxa = var_e_rxxa,
var_e_rxxa_c = var_e_rxxa_c,
var_e_rxxa_m = var_e_rxxa_m,
var_e_qxa = var_e_qxa,
var_e_qxa_c = var_e_qxa_c,
var_e_qxa_m = var_e_qxa_m,
rxxi = rxxi,
n_rxxi = n_rxxi,
wt_rxxi = wt_rxxi,
rxxi_type = rxxi_type,
qxi_mean_c = qxi_mean_c,
rxxi_mean_c = rxxi_mean_c,
qxi_var_c = qxi_var_c,
rxxi_var_c = rxxi_var_c,
qxi_mean_m = qxi_mean_m,
rxxi_mean_m = rxxi_mean_m,
qxi_var_m = qxi_var_m,
rxxi_var_m = rxxi_var_m,
qxi_mean = qxi_mean,
rxxi_mean = rxxi_mean,
qxi_var = qxi_var,
rxxi_var = rxxi_var,
rxxi_c = rxxi_c,
wt_rxxi_c = wt_rxxi_c,
rxxi_m = rxxi_m,
wt_rxxi_m = wt_rxxi_m,
var_e_rxxi = var_e_rxxi,
var_e_rxxi_c = var_e_rxxi_c,
var_e_rxxi_m = var_e_rxxi_m,
var_e_qxi = var_e_qxi,
var_e_qxi_c = var_e_qxi_c,
var_e_qxi_m = var_e_qxi_m,
ux = ux,
ni_ux = ni_ux,
wt_ux = wt_ux,
ux_mean = ux_mean,
mean_ni_ux = mean_ni_ux,
var_e_ux = var_e_ux,
ut = ut,
ni_ut = ni_ut,
wt_ut = wt_ut,
ut_mean = ut_mean,
mean_ni_ut = mean_ni_ut,
var_e_ut = var_e_ut)
est_summaries <- function(rxxa, n_rxxa, wt_rxxa, rxxa_type,
qxa_mean, rxxa_mean,
qxa_var, rxxa_var,
var_e_rxxa, var_e_qxa,
rxxa_c, wt_rxxa_c,
qxa_mean_c, rxxa_mean_c,
qxa_var_c, rxxa_var_c,
var_e_rxxa_c, var_e_qxa_c,
rxxa_m, wt_rxxa_m,
qxa_mean_m, rxxa_mean_m,
qxa_var_m, rxxa_var_m,
var_e_rxxa_m, var_e_qxa_m,
rxxi, n_rxxi, wt_rxxi, rxxi_type,
qxi_mean, rxxi_mean,
qxi_var, rxxi_var,
var_e_rxxi, var_e_qxi,
rxxi_c, wt_rxxi_c,
qxi_mean_c, rxxi_mean_c,
qxi_var_c, rxxi_var_c,
var_e_rxxi_c, var_e_qxi_c,
rxxi_m, wt_rxxi_m,
qxi_mean_m, rxxi_mean_m,
qxi_var_m, rxxi_var_m,
var_e_rxxi_m, var_e_qxi_m,
ux, ni_ux, wt_ux,
ux_mean, mean_ni_ux, var_e_ux,
ut, ni_ut, wt_ut,
ut_mean, mean_ni_ut, var_e_ut,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE){
ux_wt <- sum(wt_ux)
ut_wt <- sum(wt_ut)
p_ux <- ux_wt / (ux_wt + ut_wt)
p_ut <- ut_wt / (ux_wt + ut_wt)
rxxa_wt <- sum(wt_rxxa)
rxxa_wt_c <- sum(wt_rxxa_c)
rxxa_wt_m <- sum(wt_rxxa_m)
rxxi_wt <- sum(wt_rxxi)
rxxi_wt_c <- sum(wt_rxxi_c)
rxxi_wt_m <- sum(wt_rxxi_m)
p_rxxa <- rxxa_wt / (rxxi_wt + rxxa_wt)
p_rxxi <- rxxi_wt / (rxxi_wt + rxxa_wt)
if(estimate_rxxa){
if(!is.null(ux_mean) & !is.null(rxxi)){
rxxa_ux_irr <- estimate_rxxa(rxxi = rxxi, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
if(!is.null(var_e_rxxi)){
var_e_rxxa_ux_irr <- estimate_var_rxxa(rxxi = rxxi_mean, var_rxxi = var_e_rxxi, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
var_e_qxa_ux_irr <- estimate_var_qxa(qxi = qxi_mean, var_qxi = var_e_qxi, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
}else{
var_e_rxxa_ux_irr <- var_e_qxa_ux_irr <- NULL
}
wt_rxxa_ux <- wt_rxxi * p_ux
if(!is.null(rxxi_c)){
rxxa_ux_drr_c <- estimate_rxxa(rxxi = rxxi_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
if(!is.null(var_e_rxxi_c)){
var_e_rxxa_ux_drr_c <- estimate_var_rxxa(rxxi = rxxi_mean_c, var_rxxi = var_e_rxxi_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
var_e_qxa_ux_drr_c <- estimate_var_qxa(qxi = qxi_mean_c, var_qxi = var_e_qxi_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "internal_consistency")
}else{
var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
}
wt_rxxa_ux_c <- wt_rxxi_c * p_ux
}else{
rxxa_ux_drr_c <- wt_rxxa_ux_c <- var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
}
if(!is.null(rxxi_m)){
rxxa_ux_drr_m <- estimate_rxxa(rxxi = rxxi_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
if(!is.null(var_e_rxxi_m)){
var_e_rxxa_ux_drr_m <- estimate_var_rxxa(rxxi = rxxi_mean_m, var_rxxi = var_e_rxxi_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
var_e_qxa_ux_drr_m <- estimate_var_qxa(qxi = qxi_mean_m, var_qxi = var_e_qxi_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "multiple_administrations")
}else{
var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
}
wt_rxxa_ux_m <- wt_rxxi_m * p_ux
}else{
rxxa_ux_drr_m <- wt_rxxa_ux_m <- var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
}
}else{
rxxa_ux_irr <- wt_rxxa_ux <- var_e_rxxa_ux_irr <- var_e_qxa_ux_irr <- NULL
rxxa_ux_drr_c <- wt_rxxa_ux_c <- var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
rxxa_ux_drr_m <- wt_rxxa_ux_m <- var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
}
if(!is.null(ut_mean) & !is.null(rxxi)){
rxxa_ut <- estimate_rxxa(rxxi = rxxi, ux = ut_mean, ux_observed = FALSE)
if(!is.null(var_e_rxxi)){
var_e_rxxa_ut <- estimate_var_rxxa(rxxi = rxxi_mean, var_rxxi = var_e_rxxi, ux = ut_mean, ux_observed = FALSE)
var_e_qxa_ut <- estimate_var_qxa(qxi = qxi_mean, var_qxi = var_e_qxi, ux = ut_mean, ux_observed = FALSE)
}else{
var_e_rxxa_ut <- var_e_qxa_ut <- NULL
}
wt_rxxa_ut <- wt_rxxi * p_ut
if(!is.null(rxxi_c)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxi_mean_c, rxx_restricted = TRUE)
rxxa_ut_drr_c <- estimate_rxxa(rxxi = rxxi_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
if(!is.null(var_e_rxxi_c)){
var_e_rxxa_ut_drr_c <- estimate_var_rxxa(rxxi = rxxi_mean_c, var_rxxi = var_e_rxxi_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
var_e_qxa_ut_drr_c <- estimate_var_qxa(qxi = qxi_mean_c, var_qxi = var_e_qxi_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "internal_consistency")
}else{
var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
}
wt_rxxa_ut_c <- wt_rxxi_c * p_ut
}else{
rxxa_ut_drr_c <- wt_rxxa_ut_c <- var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
}
if(!is.null(rxxi_m)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxi_mean_m, rxx_restricted = TRUE)
rxxa_ut_drr_m <- estimate_rxxa(rxxi = rxxi_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
if(!is.null(var_e_rxxi_m)){
var_e_rxxa_ut_drr_m <- estimate_var_rxxa(rxxi = rxxi_mean_m, var_rxxi = var_e_rxxi_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
var_e_qxa_ut_drr_m <- estimate_var_qxa(qxi = qxi_mean_m, var_qxi = var_e_qxi_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxi_type = "multiple_administrations")
}else{
var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
wt_rxxa_ut_m <- wt_rxxi_m * p_ut
}else{
rxxa_ut_drr_m <- wt_rxxa_ut_m <- var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
}else{
rxxa_ut <- wt_rxxa_ut <- var_e_rxxa_ut <- var_e_qxa_ut <- NULL
rxxa_ut_drr_c <- wt_rxxa_ut_c <- var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
rxxa_ut_drr_m <- wt_rxxa_ut_m <- var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
}else{
rxxa_ux_irr <- wt_rxxa_ux <- var_e_rxxa_ux_irr <- var_e_qxa_ux_irr <- NULL
rxxa_ux_drr_c <- wt_rxxa_ux_c <- var_e_rxxa_ux_drr_c <- var_e_qxa_ux_drr_c <- NULL
rxxa_ux_drr_m <- wt_rxxa_ux_m <- var_e_rxxa_ux_drr_m <- var_e_qxa_ux_drr_m <- NULL
rxxa_ut <- wt_rxxa_ut <- var_e_rxxa_ut <- var_e_qxa_ut <- NULL
rxxa_ut_drr_c <- wt_rxxa_ut_c <- var_e_rxxa_ut_drr_c <- var_e_qxa_ut_drr_c <- NULL
rxxa_ut_drr_m <- wt_rxxa_ut_m <- var_e_rxxa_ut_drr_m <- var_e_qxa_ut_drr_m <- NULL
}
if(estimate_rxxi){
if(!is.null(ux_mean) & !is.null(rxxa)){
rxxi_ux_irr <- estimate_rxxi(rxxa = rxxa, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
if(!is.null(var_e_rxxa)){
var_e_rxxi_ux_irr <- estimate_var_rxxi(rxxa = rxxa_mean, var_rxxa = var_e_rxxa, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
var_e_qxi_ux_irr <- estimate_var_qxi(qxa = qxa_mean, var_qxa = var_e_qxa, ux = ux_mean, ux_observed = TRUE, indirect_rr = TRUE)
}else{
var_e_rxxi_ux_irr <- var_e_qxi_ux_irr <- NULL
}
wt_rxxi_ux <- wt_rxxa * p_ux
if(!is.null(rxxa_c)){
rxxi_ux_drr_c <- estimate_rxxi(rxxa = rxxa_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
if(!is.null(var_e_rxxa_c)){
var_e_rxxi_ux_drr_c <- estimate_var_rxxi(rxxa = rxxa_mean_c, var_rxxa = var_e_rxxa_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
var_e_qxi_ux_drr_c <- estimate_var_qxi(qxa = qxa_mean_c, var_qxa = var_e_qxa_c, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "internal_consistency")
}else{
var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
}
wt_rxxi_ux_c <- wt_rxxa_c * p_ux
}else{
rxxi_ux_drr_c <- wt_rxxi_ux_c <- var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
}
if(!is.null(rxxa_m)){
rxxi_ux_drr_m <- estimate_rxxi(rxxa = rxxa_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
if(!is.null(var_e_rxxa_m)){
var_e_rxxi_ux_drr_m <- estimate_var_rxxi(rxxa = rxxa_mean_m, var_rxxa = var_e_rxxa_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
var_e_qxi_ux_drr_m <- estimate_var_qxi(qxa = qxa_mean_m, var_qxa = var_e_qxa_m, ux = ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "multiple_administrations")
}else{
var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
}
wt_rxxi_ux_m <- wt_rxxa_m * p_ux
}else{
rxxi_ux_drr_m <- wt_rxxi_ux_m <- var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
}
}else{
rxxi_ux_irr <- wt_rxxi_ux <- var_e_rxxi_ux_irr <- var_e_qxi_ux_irr <- NULL
rxxi_ux_drr_c <- wt_rxxi_ux_c <- var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
rxxi_ux_drr_m <- wt_rxxi_ux_m <- var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
}
if(!is.null(ut_mean) & !is.null(rxxa)){
rxxi_ut <- estimate_rxxi(rxxa = rxxa, ux = ut_mean, ux_observed = FALSE)
if(!is.null(var_e_rxxa)){
var_e_rxxi_ut <- estimate_var_rxxi(rxxa = rxxa_mean, var_rxxa = var_e_rxxa, ux = ut_mean, ux_observed = FALSE)
var_e_qxi_ut <- estimate_var_qxi(qxa = qxa_mean, var_qxa = var_e_qxa, ux = ut_mean, ux_observed = FALSE)
}else{
var_e_rxxi_ut <- var_e_qxi_ut <- NULL
}
wt_rxxi_ut <- wt_rxxa * p_ut
if(!is.null(rxxa_c)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxa_mean_c, rxx_restricted = FALSE)
rxxi_ut_drr_c <- estimate_rxxi(rxxa = rxxa_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
if(!is.null(var_e_rxxa_c)){
var_e_rxxi_ut_drr_c <- estimate_var_rxxi(rxxa = rxxa_mean_c, var_rxxa = var_e_rxxa_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
var_e_qxi_ut_drr_c <- estimate_var_qxi(qxa = qxa_mean_c, var_qxa = var_e_qxa_c, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "internal_consistency")
}else{
var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
}
wt_rxxi_ut_c <- wt_rxxa_c * p_ut
}else{
rxxi_ut_drr_c <- wt_rxxi_ut_c <- var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
}
if(!is.null(rxxa_m)){
.ux_mean <- estimate_ux(ut = ut_mean, rxx = rxxa_mean_m, rxx_restricted = FALSE)
rxxi_ut_drr_m <- estimate_rxxi(rxxa = rxxa_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
if(!is.null(var_e_rxxa_m)){
var_e_rxxi_ut_drr_m <- estimate_var_rxxi(rxxa = rxxa_mean_m, var_rxxa = var_e_rxxa_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
var_e_qxi_ut_drr_m <- estimate_var_qxi(qxa = qxa_mean_m, var_qxa = var_e_qxa_m, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, qxa_type = "multiple_administrations")
}else{
var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
wt_rxxi_ut_m <- wt_rxxa_m * p_ut
}else{
rxxi_ut_drr_m <- wt_rxxi_ut_m <- var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
}else{
rxxi_ut <- wt_rxxi_ut <- var_e_rxxi_ut <- var_e_qxi_ut <- NULL
rxxi_ut_drr_c <- wt_rxxi_ut_c <- var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
rxxi_ut_drr_m <- wt_rxxi_ut_m <- var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
}else{
rxxi_ux_irr <- wt_rxxi_ux <- var_e_rxxi_ux_irr <- var_e_qxi_ux_irr <- NULL
rxxi_ux_drr_c <- wt_rxxi_ux_c <- var_e_rxxi_ux_drr_c <- var_e_qxi_ux_drr_c <- NULL
rxxi_ux_drr_m <- wt_rxxi_ux_m <- var_e_rxxi_ux_drr_m <- var_e_qxi_ux_drr_m <- NULL
rxxi_ut <- wt_rxxi_ut <- var_e_rxxi_ut <- var_e_qxi_ut <- NULL
rxxi_ut_drr_c <- wt_rxxi_ut_c <- var_e_rxxi_ut_drr_c <- var_e_qxi_ut_drr_c <- NULL
rxxi_ut_drr_m <- wt_rxxi_ut_m <- var_e_rxxi_ut_drr_m <- var_e_qxi_ut_drr_m <- NULL
}
if(estimate_ut){
if(!is.null(rxxa_mean) & !is.null(ux)){
ut_rxxa <- estimate_ut(ux = ux, rxx = rxxa_mean, rxx_restricted = FALSE)
if(!is.null(var_e_ux)){
var_e_ut_rxxa <- estimate_var_ut(ux = ux_mean, var_ux = var_e_ux, rxx = rxxa_mean, rxx_restricted = FALSE)
}else{
var_e_ut_rxxa <- NULL
}
wt_ut_rxxa <- wt_ux * p_rxxa
}else{
ut_rxxa <- wt_ut_rxxa <- var_e_ut_rxxa <- NULL
}
if(!is.null(rxxi_mean) & !is.null(ux)){
ut_rxxi <- estimate_ut(ux = ux, rxx = rxxi_mean, rxx_restricted = TRUE)
if(!is.null(var_e_ux)){
var_e_ut_rxxi <- estimate_var_ut(ux = ux_mean, var_ux = var_e_ux, rxx = rxxi_mean, rxx_restricted = TRUE)
}else{
var_e_ut_rxxi <- NULL
}
wt_ut_rxxi <- wt_ux * p_rxxi
}else{
ut_rxxi <- wt_ut_rxxi <- var_e_ut_rxxi <- NULL
}
}else{
ut_rxxa <- wt_ut_rxxa <- var_e_ut_rxxa <- NULL
ut_rxxi <- wt_ut_rxxi <- var_e_ut_rxxi <- NULL
}
if(estimate_ux){
if(!is.null(rxxa_mean) & !is.null(ut)){
ux_rxxa <- estimate_ux(ut = ut, rxx = rxxa_mean, rxx_restricted = FALSE)
if(!is.null(var_e_ut)){
var_e_ux_rxxa <- estimate_var_ux(ut = ut_mean, var_ut = var_e_ut, rxx = rxxa_mean, rxx_restricted = FALSE)
}else{
var_e_ux_rxxa <- NULL
}
wt_ux_rxxa <- wt_ut * p_rxxa
}else{
ux_rxxa <- wt_ux_rxxa <- var_e_ux_rxxa <- NULL
}
if(!is.null(rxxi_mean) & !is.null(ut)){
ux_rxxi <- estimate_ux(ut = ut, rxx = rxxi_mean, rxx_restricted = TRUE)
if(!is.null(var_e_ut)){
var_e_ux_rxxi <- estimate_var_ux(ut = ut_mean, var_ut = var_e_ut, rxx = rxxi_mean, rxx_restricted = TRUE)
}else{
var_e_ux_rxxi <- NULL
}
wt_ux_rxxi <- wt_ut * p_rxxi
}else{
ux_rxxi <- wt_ux_rxxi <- var_e_ux_rxxi <- NULL
}
}else{
ux_rxxa <- wt_ux_rxxa <- var_e_ux_rxxa <- NULL
ux_rxxi <- wt_ux_rxxi <- var_e_ux_rxxi <- NULL
}
rxxa_vec_irr <- c(rxxa, rxxa_ux_irr, rxxa_ut)
rxxa_vec_drr <- c(rxxa, rxxa_ux_drr_c, rxxa_ux_drr_m,
rxxa_ut_drr_c, rxxa_ut_drr_m)
wt_rxxa_irr <- c(wt_rxxa, wt_rxxa_ux, wt_rxxa_ut)
wt_rxxa_drr <- c(wt_rxxa, wt_rxxa_ux_c, wt_rxxa_ux_m,
wt_rxxa_ut_c, wt_rxxa_ut_m)
rxxi_vec_irr <- c(rxxi, rxxi_ux_irr, rxxi_ut)
rxxi_vec_drr <- c(rxxi, rxxi_ux_drr_c, rxxi_ux_drr_m,
rxxi_ut_drr_c, rxxi_ut_drr_m)
wt_rxxi_irr <- c(wt_rxxi, wt_rxxi_ux, wt_rxxi_ut)
wt_rxxi_drr <- c(wt_rxxi, wt_rxxi_ux_c, wt_rxxi_ux_m,
wt_rxxi_ut_c, wt_rxxi_ut_m)
.ux <- ux
.wt_ux <- wt_ux
ux <- c(ux, ux_rxxa, ux_rxxi)
wt_ux <- c(wt_ux, wt_ux_rxxa, wt_ux_rxxi)
.ut <- ut
.wt_ut <- wt_ut
ut <- c(ut, ut_rxxa, ut_rxxi)
wt_ut <- c(wt_ut, wt_ut_rxxa, wt_ut_rxxi)
mean_qxi_irr <- art_mean(art_vec = rxxi_vec_irr^.5, wt_vec = wt_rxxi_irr, null_value = NA)
mean_qxi_drr <- art_mean(art_vec = rxxi_vec_drr^.5, wt_vec = wt_rxxi_drr, null_value = NA)
mean_qxa_irr <- art_mean(art_vec = rxxa_vec_irr^.5, wt_vec = wt_rxxa_irr, null_value = NA)
mean_qxa_drr <- art_mean(art_vec = rxxa_vec_drr^.5, wt_vec = wt_rxxa_drr, null_value = NA)
mean_rxxi_irr <- art_mean(art_vec = rxxi_vec_irr, wt_vec = wt_rxxi_irr, null_value = NA)
mean_rxxi_drr <- art_mean(art_vec = rxxi_vec_drr, wt_vec = wt_rxxi_drr, null_value = NA)
mean_rxxa_irr <- art_mean(art_vec = rxxa_vec_irr, wt_vec = wt_rxxa_irr, null_value = NA)
mean_rxxa_drr <- art_mean(art_vec = rxxa_vec_drr, wt_vec = wt_rxxa_drr, null_value = NA)
mean_ux <- art_mean(art_vec = ux, wt_vec = wt_ux, null_value = NA)
mean_ut <- art_mean(art_vec = ut, wt_vec = wt_ut, null_value = NA)
var_qxi_irr <- art_var(art_vec = rxxi_vec_irr^.5, wt_vec = wt_rxxi_irr, null_value = NA, var_unbiased = var_unbiased)
var_qxi_drr <- art_var(art_vec = rxxi_vec_drr^.5, wt_vec = wt_rxxi_drr, null_value = NA, var_unbiased = var_unbiased)
var_qxa_irr <- art_var(art_vec = rxxa_vec_irr^.5, wt_vec = wt_rxxa_irr, null_value = NA, var_unbiased = var_unbiased)
var_qxa_drr <- art_var(art_vec = rxxa_vec_drr^.5, wt_vec = wt_rxxa_drr, null_value = NA, var_unbiased = var_unbiased)
var_rxxi_irr <- art_var(art_vec = rxxi_vec_irr, wt_vec = wt_rxxi_irr, null_value = NA, var_unbiased = var_unbiased)
var_rxxi_drr <- art_var(art_vec = rxxi_vec_drr, wt_vec = wt_rxxi_drr, null_value = NA, var_unbiased = var_unbiased)
var_rxxa_irr <- art_var(art_vec = rxxa_vec_irr, wt_vec = wt_rxxa_irr, null_value = NA, var_unbiased = var_unbiased)
var_rxxa_drr <- art_var(art_vec = rxxa_vec_drr, wt_vec = wt_rxxa_drr, null_value = NA, var_unbiased = var_unbiased)
var_ux <- art_var(art_vec = ux, wt_vec = wt_ux, null_value = NA, var_unbiased = var_unbiased)
var_ut <- art_var(art_vec = ut, wt_vec = wt_ut, null_value = NA, var_unbiased = var_unbiased)
.sum_weights <- function(x) if(length(x) == 0){NULL}else{sum(x)}
wtsum_vec_rxxa_irr <- unlist(lapply(list(wt_rxxa, wt_rxxa_ux, wt_rxxa_ut), .sum_weights))
wtsum_vec_rxxa_drr <- unlist(lapply(list(wt_rxxa, wt_rxxa_ux_c, wt_rxxa_ux_m,
wt_rxxa_ut_c, wt_rxxa_ut_m), .sum_weights))
wtsum_vec_rxxi_irr <- unlist(lapply(list(wt_rxxi, wt_rxxi_ux, wt_rxxi_ut), .sum_weights))
wtsum_vec_rxxi_drr <- unlist(lapply(list(wt_rxxi, wt_rxxi_ux_c, wt_rxxi_ux_m,
wt_rxxi_ut_c, wt_rxxi_ut_m), .sum_weights))
wtsum_vec_ux <- unlist(lapply(list(wt_ux, wt_ux_rxxa, wt_ux_rxxi), .sum_weights))
wtsum_vec_ut <- unlist(lapply(list(wt_ut, wt_ut_rxxa, wt_ut_rxxi), .sum_weights))
vare_vec_qxi_irr <- c(var_e_qxi, var_e_qxi_ux_irr, var_e_qxi_ut)
vare_vec_qxi_drr <- c(var_e_qxi, var_e_qxi_ux_drr_c, var_e_qxi_ux_drr_m,
var_e_qxi_ut_drr_c, var_e_qxi_ut_drr_m)
vare_vec_qxa_irr <- c(var_e_qxa, var_e_qxa_ux_irr, var_e_qxa_ut)
vare_vec_qxa_drr <- c(var_e_qxa, var_e_qxa_ux_drr_c, var_e_qxa_ux_drr_m,
var_e_qxa_ut_drr_c, var_e_qxa_ut_drr_m)
vare_vec_rxxi_irr <- c(var_e_rxxi, var_e_rxxi_ux_irr, var_e_rxxi_ut)
vare_vec_rxxi_drr <- c(var_e_rxxi, var_e_rxxi_ux_drr_c, var_e_rxxi_ux_drr_m,
var_e_rxxi_ut_drr_c, var_e_rxxi_ut_drr_m)
vare_vec_rxxa_irr <- c(var_e_rxxa, var_e_rxxa_ux_irr, var_e_rxxa_ut)
vare_vec_rxxa_drr <- c(var_e_rxxa, var_e_rxxa_ux_drr_c, var_e_rxxa_ux_drr_m,
var_e_rxxa_ut_drr_c, var_e_rxxa_ut_drr_m)
vare_vec_ux <- c(var_e_ux, var_e_ux_rxxa, var_e_ux_rxxi)
vare_vec_ut <- c(var_e_ut, var_e_ut_rxxa, var_e_ut_rxxi)
vare_qxi_irr <- art_mean(art_vec = vare_vec_qxi_irr, wt_vec = wtsum_vec_rxxi_irr, null_value = NA)
vare_qxi_drr <- art_mean(art_vec = vare_vec_qxi_drr, wt_vec = wtsum_vec_rxxi_drr, null_value = NA)
vare_qxa_irr <- art_mean(art_vec = vare_vec_qxa_irr, wt_vec = wtsum_vec_rxxa_irr, null_value = NA)
vare_qxa_drr <- art_mean(art_vec = vare_vec_qxa_drr, wt_vec = wtsum_vec_rxxa_drr, null_value = NA)
vare_rxxi_irr <- art_mean(art_vec = vare_vec_rxxi_irr, wt_vec = wtsum_vec_rxxi_irr, null_value = NA)
vare_rxxi_drr <- art_mean(art_vec = vare_vec_rxxi_drr, wt_vec = wtsum_vec_rxxi_drr, null_value = NA)
vare_rxxa_irr <- art_mean(art_vec = vare_vec_rxxa_irr, wt_vec = wtsum_vec_rxxa_irr, null_value = NA)
vare_rxxa_drr <- art_mean(art_vec = vare_vec_rxxa_drr, wt_vec = wtsum_vec_rxxa_drr, null_value = NA)
vare_ux <- art_mean(art_vec = vare_vec_ux, wt_vec = wtsum_vec_ux, null_value = NA)
vare_ut <- art_mean(art_vec = vare_vec_ut, wt_vec = wtsum_vec_ut, null_value = NA)
name_vec <- c("qxi_irr", "qxi_drr",
"qxa_irr", "qxa_drr",
"rxxi_irr", "rxxi_drr",
"rxxa_irr", "rxxa_drr",
"ux", "ut")
k_vec <- c(length(rxxi), length(rxxi), length(rxxa), length(rxxa),
length(rxxi), length(rxxi), length(rxxa), length(rxxa),
length(.ux), length(.ut))
N_vec <- c(sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE),
sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE),
sum(ni_ux, na.rm = TRUE), sum(ni_ut, na.rm = TRUE))
if(estimate_rxxa){
k_vec <- k_vec + c(0, 0, length(rxxi), length(rxxi),
0, 0, length(rxxi), length(rxxi),
0, 0)
N_vec <- N_vec + c(0, 0, sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE),
0, 0, sum(n_rxxi, na.rm = TRUE), sum(n_rxxi, na.rm = TRUE),
0, 0)
}
if(estimate_rxxi){
k_vec <- k_vec + c(length(rxxa), length(rxxa), 0, 0,
length(rxxa), length(rxxa), 0, 0,
0, 0)
N_vec <- N_vec + c(sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), 0, 0,
sum(n_rxxa, na.rm = TRUE), sum(n_rxxa, na.rm = TRUE), 0, 0,
0, 0)
}
if(estimate_ux){
k_vec <- k_vec + c(rep(0, 8),
length(.ut), 0)
N_vec <- N_vec + c(rep(0, 8),
sum(ni_ut, na.rm = TRUE), 0)
}
if(estimate_ut){
k_vec <- k_vec + c(rep(0, 8),
0, length(.ux))
N_vec <- N_vec + c(rep(0, 8),
0, sum(ni_ux, na.rm = TRUE))
}
mean_vec <- c(mean_qxi_irr, mean_qxi_drr,
mean_qxa_irr, mean_qxa_drr,
mean_rxxi_irr, mean_rxxi_drr,
mean_rxxa_irr, mean_rxxa_drr,
mean_ux, mean_ut)
var_vec <- c(var_qxi_irr, var_qxi_drr,
var_qxa_irr, var_qxa_drr,
var_rxxi_irr, var_rxxi_drr,
var_rxxa_irr, var_rxxa_drr,
var_ux, var_ut)
vare_vec <- c(vare_qxi_irr, vare_qxi_drr,
vare_qxa_irr, vare_qxa_drr,
vare_rxxi_irr, vare_rxxi_drr,
vare_rxxa_irr, vare_rxxa_drr,
vare_ux, vare_ut)
.vare_vec <- vare_vec
.vare_vec[is.na(.vare_vec)] <- 0
var_res_vec <- var_vec - .vare_vec
var_res_vec[var_res_vec < 0] <- 0
rel_vec <- setNames(var_res_vec / var_vec, name_vec)
rel_vec[is.na(rel_vec)] <- 0
summary_mat <- cbind(k = k_vec, N = N_vec,
mean = mean_vec,
var = var_vec, var_e = vare_vec, var_res = var_res_vec,
sd = var_vec^.5, sd_e = vare_vec^.5, sd_res = var_res_vec^.5,
reliability = rel_vec)
rownames(summary_mat) <- name_vec
summary_mat <- summary_mat[c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut"),]
summary_mat[is.na(summary_mat[,"mean"]),] <- NA
out <- list(qxa_irr = .create_ad_int(art_vec = rxxa_vec_irr^.5, wt_vec = wt_rxxa_irr),
qxa_drr = .create_ad_int(art_vec = rxxa_vec_drr^.5, wt_vec = wt_rxxa_drr),
qxi_irr = .create_ad_int(art_vec = rxxi_vec_irr^.5, wt_vec = wt_rxxi_irr),
qxi_drr = .create_ad_int(art_vec = rxxi_vec_drr^.5, wt_vec = wt_rxxi_drr),
ux = .create_ad_int(art_vec = ux, wt_vec = wt_ux),
ut = .create_ad_int(art_vec = ut, wt_vec = wt_ut))
valid_rxxa_irr <- !is.null(rxxa_vec_irr) & length(rxxa_vec_irr) > 0
valid_rxxa_drr <- !is.null(rxxa_vec_drr) & length(rxxa_vec_drr) > 0
valid_rxxi_irr <- !is.null(rxxi_vec_irr) & length(rxxi_vec_irr) > 0
valid_rxxi_drr <- !is.null(rxxi_vec_drr) & length(rxxi_vec_drr) > 0
valid_ux <- !is.null(ux) & length(ux) > 0
valid_ut <- !is.null(ut) & length(ut) > 0
ad_contents <- c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr", "ux", "ut")[c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)]
if(sum(c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)) == 0) ad_contents <- "NULL"
attributes(out) <- append(attributes(out), list(summary = summary_mat, ad_contents = ad_contents))
class(out) <- c("ad_int_list", "list")
out
}
arglist <- append(.arglist,
list(estimate_rxxa = estimate_rxxa, estimate_rxxi = estimate_rxxi,
estimate_ux = estimate_ux, estimate_ut = estimate_ut))
arglist_raw <- append(.arglist,
list(estimate_rxxa = FALSE, estimate_rxxi = FALSE,
estimate_ux = FALSE, estimate_ut = FALSE))
ad_out <- do.call(est_summaries, args = arglist)
.attributes <- attributes(ad_out)
out <- tibble(Artifact = names(ad_out), Distribution = ad_out)
out_raw <- do.call(est_summaries, args = arglist_raw)
attributes(out) <- append(attributes(out),
list(summary = .attributes$summary,
ad_contents = .attributes$ad_contents,
summary_raw = attributes(out_raw)$summary,
ad_contents_raw = attributes(out_raw)$ad_contents,
inputs = inputs))
class(out) <- c("ad_int", class(out))
out
}
create_ad_tsa <- function(rxxi = NULL, n_rxxi = NULL, wt_rxxi = n_rxxi, rxxi_type = rep("alpha", length(rxxi)), k_items_rxxi = rep(NA, length(rxxi)),
mean_qxi = NULL, var_qxi = NULL, k_qxi = NULL, mean_n_qxi = NULL, qxi_dist_type = rep("alpha", length(mean_qxi)), mean_k_items_qxi = rep(NA, length(mean_qxi)),
mean_rxxi = NULL, var_rxxi = NULL, k_rxxi = NULL, mean_n_rxxi = NULL, rxxi_dist_type = rep("alpha", length(mean_rxxi)), mean_k_items_rxxi = rep(NA, length(mean_rxxi)),
rxxa = NULL, n_rxxa = NULL, wt_rxxa = n_rxxa, rxxa_type = rep("alpha", length(rxxa)), k_items_rxxa = rep(NA, length(rxxa)),
mean_qxa = NULL, var_qxa = NULL, k_qxa = NULL, mean_n_qxa = NULL, qxa_dist_type = rep("alpha", length(mean_qxa)), mean_k_items_qxa = rep(NA, length(mean_qxa)),
mean_rxxa = NULL, var_rxxa = NULL, k_rxxa = NULL, mean_n_rxxa = NULL, rxxa_dist_type = rep("alpha", length(mean_rxxa)), mean_k_items_rxxa = rep(NA, length(mean_rxxa)),
ux = NULL, ni_ux = NULL, na_ux = NULL, wt_ux = ni_ux, dep_sds_ux_obs = FALSE,
mean_ux = NULL, var_ux = NULL, k_ux = NULL, mean_ni_ux = NULL, mean_na_ux = NA, dep_sds_ux_spec = FALSE,
ut = NULL, ni_ut = NULL, na_ut = NULL, wt_ut = ni_ut, dep_sds_ut_obs = FALSE,
mean_ut = NULL, var_ut = NULL, k_ut = NULL, mean_ni_ut = NULL, mean_na_ut = NA, dep_sds_ut_spec = FALSE,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE,
var_unbiased = TRUE, ...){
if(length(rxxi) > 0){
if(length(n_rxxi) == 0){
n_rxxi <- rep(NA, length(rxxi))
if(length(wt_rxxi) == 0){
wt_rxxi <- rep(1, length(rxxi))
}else{
if(length(wt_rxxi) != length(rxxi))
stop("When wt_rxxi is not NULL, the lengths of rxxi and wt_rxxi must be equal", call. = FALSE)
}
}else{
if(length(n_rxxi) != length(rxxi))
stop("When n_rxxi is not NULL, the lengths of rxxi and n_rxxi must be equal", call. = FALSE)
if(length(wt_rxxi) == 0)
wt_rxxi <- n_rxxi
}
if(length(rxxi_type) == 0){
rxxi_type <- rep("alpha", length(rxxi))
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(rxxi_type) == 1)
rxxi_type <- rep(rxxi_type, length(rxxi))
if(length(rxxi_type) != length(rxxi))
stop("When rxxi_type is not length 1, the lengths of rxxi and rxxi_type must be equal", call. = FALSE)
}
if(length(k_items_rxxi) == 0){
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(k_items_rxxi) == 1)
k_items_rxxi <- rep(k_items_rxxi, length(rxxi))
if(length(k_items_rxxi) != length(rxxi))
stop("When k_items_rxxi is not length 1, the lengths of rxxi and k_items_rxxi must be equal", call. = FALSE)
}
}else{
n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(length(rxxa) > 0){
if(length(n_rxxa) == 0){
n_rxxa <- rep(NA, length(rxxa))
if(length(wt_rxxa) == 0){
wt_rxxa <- rep(1, length(rxxa))
}else{
if(length(wt_rxxa) != length(rxxa))
stop("When wt_rxxa is not NULL, the lengths of rxxa and wt_rxxa must be equal", call. = FALSE)
}
}else{
if(length(n_rxxa) != length(rxxa))
stop("When n_rxxa is not NULL, the lengths of rxxa and n_rxxa must be equal", call. = FALSE)
if(length(wt_rxxa) == 0)
wt_rxxa <- n_rxxa
}
if(length(rxxa_type) == 0){
rxxa_type <- rep("alpha", length(rxxa))
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(rxxa_type) == 1)
rxxa_type <- rep(rxxa_type, length(rxxa))
if(length(rxxa_type) != length(rxxa))
stop("When rxxa_type is not length 1, the lengths of rxxa and rxxa_type must be equal", call. = FALSE)
}
if(length(k_items_rxxa) == 0){
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(k_items_rxxa) == 1)
k_items_rxxa <- rep(k_items_rxxa, length(rxxa))
if(length(k_items_rxxa) != length(rxxa))
stop("When k_items_rxxa is not length 1, the lengths of rxxa and k_items_rxxa must be equal", call. = FALSE)
}
}else{
n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(length(ux) > 0){
if(length(ni_ux) == 0){
ni_ux <- rep(NA, length(ux))
if(length(wt_ux) == 0){
wt_ux <- rep(1, length(ux))
}else{
if(length(wt_ux) != length(ux))
stop("When wt_ux is not NULL, the lengths of ux and wt_ux must be equal", call. = FALSE)
}
}else{
if(length(ni_ux) != length(ux))
stop("When ni_ux is not NULL, the lengths of ux and ni_ux must be equal", call. = FALSE)
if(length(wt_ux) == 0)
wt_ux <- ni_ux
}
if(length(na_ux) == 0){
na_ux <- rep(NA, length(ux))
}else{
if(length(na_ux) != length(ux))
stop("When na_ux is not NULL, the lengths of ux and na_ux must be equal", call. = FALSE)
}
if(length(dep_sds_ux_obs) == 0){
dep_sds_ux_obs <- rep(FALSE, length(ux))
}else{
if(length(dep_sds_ux_obs) == 1)
dep_sds_ux_obs <- rep(dep_sds_ux_obs, length(ux))
if(length(dep_sds_ux_obs) != length(ux))
stop("When dep_sds_ux_obs is not length 1, the lengths of ux and dep_sds_ux_obs must be equal", call. = FALSE)
}
}else{
ni_ux <- wt_ux <- na_ux <- dep_sds_ux_obs <- NULL
}
if(length(ut) > 0){
if(length(ni_ut) == 0){
ni_ut <- rep(NA, length(ut))
if(length(wt_ut) == 0){
wt_ut <- rep(1, length(ut))
}else{
if(length(wt_ut) != length(ut))
stop("When wt_ut is not NULL, the lengths of ut and wt_ut must be equal", call. = FALSE)
}
}else{
if(length(ni_ut) != length(ut))
stop("When ni_ut is not NULL, the lengths of ut and ni_ut must be equal", call. = FALSE)
if(length(wt_ut) == 0)
wt_ut <- ni_ut
}
if(length(na_ut) == 0){
na_ut <- rep(NA, length(ut))
}else{
if(length(na_ut) != length(ut))
stop("When na_ut is not NULL, the lengths of ut and na_ut must be equal", call. = FALSE)
}
if(length(dep_sds_ut_obs) == 0){
dep_sds_ut_obs <- rep(FALSE, length(ut))
}else{
if(length(dep_sds_ut_obs) == 1)
dep_sds_ut_obs <- rep(dep_sds_ut_obs, length(ut))
if(length(dep_sds_ut_obs) != length(ut))
stop("When dep_sds_ut_obs is not length 1, the lengths of ut and dep_sds_ut_obs must be equal", call. = FALSE)
}
}else{
ni_ut <- wt_ut <- na_ut <- dep_sds_ut_obs <- NULL
}
inputs <- list(rxxi = rxxi, n_rxxi = n_rxxi, wt_rxxi = wt_rxxi, rxxi_type = rxxi_type, k_items_rxxi = k_items_rxxi,
mean_qxi = mean_qxi, var_qxi = var_qxi, k_qxi = k_qxi, mean_n_qxi = mean_n_qxi, qxi_dist_type = qxi_dist_type, mean_k_items_qxi = mean_k_items_qxi,
mean_rxxi = mean_rxxi, var_rxxi = var_rxxi, k_rxxi = k_rxxi, mean_n_rxxi = mean_n_rxxi, rxxi_dist_type = rxxi_dist_type, mean_k_items_rxxi = mean_k_items_rxxi,
rxxa = rxxa, n_rxxa = n_rxxa, wt_rxxa = wt_rxxa, rxxa_type = rxxa_type, k_items_rxxa = k_items_rxxa,
mean_qxa = mean_qxa, var_qxa = var_qxa, k_qxa = k_qxa, mean_n_qxa = mean_n_qxa, qxa_dist_type = qxa_dist_type, mean_k_items_qxa = mean_k_items_qxa,
mean_rxxa = mean_rxxa, var_rxxa = var_rxxa, k_rxxa = k_rxxa, mean_n_rxxa = mean_n_rxxa, rxxa_dist_type = rxxa_dist_type, mean_k_items_rxxa = mean_k_items_rxxa,
ux = ux, ni_ux = ni_ux, na_ux = na_ux, wt_ux = wt_ux, dep_sds_ux_obs = dep_sds_ux_obs,
mean_ux = mean_ux, var_ux = var_ux, k_ux = k_ux, mean_ni_ux = mean_ni_ux, mean_na_ux = mean_na_ux, dep_sds_ux_spec = dep_sds_ux_spec,
ut = ut, ni_ut = ni_ut, na_ut = na_ut, wt_ut = wt_ut, dep_sds_ut_obs = dep_sds_ut_obs,
mean_ut = mean_ut, var_ut = var_ut, k_ut = k_ut, mean_ni_ut = mean_ni_ut, mean_na_ut = mean_na_ut, dep_sds_ut_spec = dep_sds_ut_spec)
N_qxi <- mean_n_qxi * k_qxi
N_rxxi <- mean_n_rxxi * k_rxxi
N_qxa <- mean_n_qxa * k_qxa
N_rxxa <- mean_n_rxxa * k_rxxa
Ni_ux <- mean_ni_ux * k_ux
Na_ux <- mean_na_ux * k_ux
Ni_ut <- mean_ni_ut * k_ut
Na_ut <- mean_na_ut * k_ut
art_summary <- function(art_vec, wt_vec, ni_vec, na_vec = NULL, k_items = NULL, art_type = NULL, dependent_sds = FALSE,
mean_art_1 = NULL, var_art_1 = NULL, k_art_1 = NULL, mean_ni_art_1 = NULL, mean_na_art_1 = NA, dependent_sds_art_1 = FALSE, dist_type_1 = NULL, mean_k_items_art_1 = NULL,
mean_art_2 = NULL, var_art_2 = NULL, k_art_2 = NULL, mean_n_art_2 = NULL, dist_type_2 = NULL, mean_k_items_art_2 = NULL, art = "q", var_unbiased){
if(!is.null(art_vec)){
if(is.null(wt_vec)) wt_vec <- rep(1, length(art_vec))
if(art == "q" | art == "rel") valid_art <- filter_rel(rel_vec = art_vec, wt_vec = wt_vec)
if(art == "u") valid_art <- filter_u(u_vec = art_vec, wt_vec = wt_vec)
valid_art <- valid_art & !is.na(wt_vec)
if(!is.null(ni_vec)){
if(any(!is.na(ni_vec))){
ni_vec <- ni_vec[valid_art]
}else{
ni_vec <- NULL
}
}
if(!is.null(na_vec)) na_vec <- na_vec[valid_art]
art_vec <- art_vec[valid_art]
wt_vec <- wt_vec[valid_art]
if(!is.null(art_type)) art_type <- art_type[valid_art]
if(!is.null(k_items)) k_items <- k_items[valid_art]
if(art == "q") art_desc_obs <- t(wt_dist(x = art_vec^.5, wt = wt_vec, unbiased = var_unbiased))
if(art == "rel") art_desc_obs <- t(wt_dist(x = art_vec, wt = wt_vec, unbiased = var_unbiased))
if(art == "u") art_desc_obs <- t(wt_dist(x = art_vec, wt = wt_vec, unbiased = var_unbiased))
if(is.null(ni_vec)){
art_desc_obs <- cbind(art_desc_obs, var_e = 0, var_res = as.numeric(art_desc_obs[,"var"]), total_n = 1, n_wt = 0)
}else{
if(art == "q"){
var_e <- var_error_q(q = art_desc_obs[,"mean"], n = ni_vec, rel_type = art_type, k_items = k_items)
if(length(var_e) == 0){
var_e <- 0
}else{
var_e <- wt_mean(x = var_e, wt = ni_vec)
}
var_res <- as.numeric(art_desc_obs[,"var"] - var_e)
}
if(art == "rel"){
var_e <- var_error_rel(rel = art_desc_obs[,"mean"], n = ni_vec, rel_type = art_type, k_items = k_items)
if(length(var_e) == 0){
var_e <- 0
}else{
var_e <- wt_mean(x = var_e, wt = ni_vec)
}
var_res <- as.numeric(art_desc_obs[,"var"] - var_e)
}
if(art == "u"){
if(!is.null(na_vec)){
var_e <- var_error_u(u = art_desc_obs[,"mean"], ni = ni_vec, na = na_vec, dependent_sds = dependent_sds)
if(length(var_e) == 0){
var_e <- 0
}else{
var_e <- wt_mean(x = var_e, wt = ni_vec)
}
}else{
var_e <- var_error_u(u = art_desc_obs[,"mean"], ni = mean(ni_vec, na.rm = TRUE))
}
var_res <- as.numeric(art_desc_obs[,"var"] - var_e)
}
art_desc_obs <- cbind(art_desc_obs, var_e = var_e, var_res = var_res, total_n = sum(ni_vec, na.rm = TRUE), n_wt = 1)
art_desc_obs[,"var_res"] <- ifelse(art_desc_obs[,"var_res"] < 0, 0, as.numeric(art_desc_obs[,"var_res"]))
}
}else{
art_desc_obs <- NULL
}
if(!is.null(mean_art_1) & !is.null(var_art_1)){
if(art == "q") screen_rel(rel_vec = mean_art_1, art_name = "Mean square root of reliability")
if(art == "rel") screen_rel(rel_vec = mean_art_1, art_name = "Mean reliability")
if(art == "u") screen_u(u_vec = mean_art_1, art_name = "Mean u ratio")
art_desc_spec_1 <- cbind(mean = mean_art_1, var = var_art_1)
if(!is.null(mean_ni_art_1)){
valid_n <- !is.na(mean_ni_art_1)
var_e <- rep(0, nrow(art_desc_spec_1))
var_res <- as.numeric(art_desc_spec_1[,"var"])
if(art == "q") var_e[valid_n] <- as.numeric(var_error_q(q = art_desc_spec_1[valid_n,"mean"], n = mean_ni_art_1[valid_n],
rel_type = dist_type_1, k_items = mean_k_items_art_1))
if(art == "rel") var_e[valid_n] <- as.numeric(var_error_rel(rel = art_desc_spec_1[valid_n,"mean"], n = mean_ni_art_1[valid_n],
rel_type = dist_type_1, k_items = mean_k_items_art_1))
if(art == "u") var_e[valid_n] <- as.numeric(var_error_u(u = art_desc_spec_1[valid_n,"mean"], ni = mean_ni_art_1[valid_n],
na = mean_na_art_1, dependent_sds = dependent_sds_art_1))
var_res[valid_n] <- as.numeric(art_desc_spec_1[valid_n,"var"] - var_e[valid_n])
if(!is.null(k_art_1)){
art_desc_spec_1 <- cbind(art_desc_spec_1, var_e = var_e, var_res = var_res, total_n = k_art_1 * mean_ni_art_1, n_wt = as.numeric(valid_n))
}else{
art_desc_spec_1 <- cbind(art_desc_spec_1, var_e = var_e, var_res = var_res, total_n = 1, n_wt = 0)
}
art_desc_spec_1[,"var_res"] <- ifelse(art_desc_spec_1[,"var_res"] < 0, 0, as.numeric(art_desc_spec_1[,"var_res"]))
}else{
art_desc_spec_1 <- cbind(art_desc_spec_1, var_e = 0, var_res = as.numeric(art_desc_spec_1[,"var"]), total_n = 1, n_wt = 0)
}
}else{
art_desc_spec_1 <- NULL
}
if((art == "q" | art == "rel") & !is.null(mean_art_2) & !is.null(var_art_2)){
if(art == "q") screen_rel(rel_vec = mean_art_2, art_name = "Mean reliability")
if(art == "rel") screen_rel(rel_vec = mean_art_2, art_name = "Mean square root of reliability")
art_desc_spec_2 <- cbind(mean = mean_art_2, var = var_art_2)
if(!is.null(mean_n_art_2)){
valid_n <- !is.na(mean_n_art_2)
var_e <- rep(0, nrow(art_desc_spec_2))
var_res <- as.numeric(art_desc_spec_2[,"var"])
if(art == "q") var_e[valid_n] <- as.numeric(var_error_rel(rel = art_desc_spec_2[valid_n,"mean"], n = mean_n_art_2[valid_n],
rel_type = dist_type_2, k_items = mean_k_items_art_2))
if(art == "rel") var_e[valid_n] <- as.numeric(var_error_q(q = art_desc_spec_2[valid_n,"mean"], n = mean_n_art_2[valid_n],
rel_type = dist_type_2, k_items = mean_k_items_art_2))
var_res[valid_n] <- as.numeric(art_desc_spec_2[valid_n,"var"] - var_e[valid_n])
if(!is.null(k_art_2)){
art_desc_spec_2 <- cbind(art_desc_spec_2, var_e = var_e, var_res = var_res, total_n = k_art_2 * mean_n_art_2, n_wt = as.numeric(valid_n))
}else{
art_desc_spec_2 <- cbind(art_desc_spec_2, var_e = var_e, var_res = var_res, total_n = 1, n_wt = 0)
}
art_desc_spec_2[,"var_res"] <- ifelse(art_desc_spec_2[,"var_res"] < 0, 0, as.numeric(art_desc_spec_2[,"var_res"]))
}else{
art_desc_spec_2 <- cbind(art_desc_spec_2, var_e = 0, var_res = as.numeric(art_desc_spec_2[,"var"]), total_n = 1, n_wt = 0)
}
if(art == "q")
art_desc_spec_2 <- as.matrix(cbind(estimate_q_dist(mean_rel = art_desc_spec_2[,"mean"], var_rel = art_desc_spec_2[,"var"]),
cbind(var_e = estimate_q_dist(mean_rel = art_desc_spec_2[,"mean"], var_rel = art_desc_spec_2[,"var_e"])[,2]),
cbind(var_res = estimate_q_dist(mean_rel = art_desc_spec_2[,"mean"], var_rel = art_desc_spec_2[,"var_res"])[,2]),
matrix(art_desc_spec_2[,c("total_n", "n_wt")], ncol = 2)))
if(art == "rel")
art_desc_spec_2 <- as.matrix(cbind(estimate_rel_dist(mean_q = art_desc_spec_2[,"mean"], var_q = art_desc_spec_2[,"var"]),
cbind(var_e = estimate_rel_dist(mean_q = art_desc_spec_2[,"mean"], var_q = art_desc_spec_2[,"var_e"])[,2]),
cbind(var_res = estimate_rel_dist(mean_q = art_desc_spec_2[,"mean"], var_q = art_desc_spec_2[,"var_res"])[,2]),
matrix(art_desc_spec_2[,c("total_n", "n_wt")], ncol = 2)))
colnames(art_desc_spec_2) <- c("mean", "var", "var_e", "var_res", "total_n", "n_wt")
}else{
art_desc_spec_2 <- NULL
}
art_desc_mat <- rbind(art_desc_obs, art_desc_spec_1, art_desc_spec_2)
if(!is.null(art_desc_mat)){
art_desc_mat <- art_desc_mat[!is.na(art_desc_mat[,"mean"]),]
if(!is.matrix(art_desc_mat)){
if(length(art_desc_mat) == 0){
art_desc_mat <- NULL
}else{
art_desc_mat <- t(art_desc_mat)
}
}else{
if(nrow(art_desc_mat) == 0)
art_desc_mat <- NULL
}
}
if(!is.null(art_desc_mat)){
if(nrow(art_desc_mat) > 1){
n_wt <- all(art_desc_mat[,"n_wt"] == 1)
if(n_wt){
n_wt_vec <- as.numeric(art_desc_mat[,"total_n"])
}else{
warning("Sample sizes not supplied for one or more distributions; distributions were combined using unit weights", call. = FALSE)
n_wt_vec <- rep(1, nrow(art_desc_mat))
}
art_desc <- setNames(as.numeric(mix_dist(mean_vec = art_desc_mat[,"mean"], var_vec = art_desc_mat[,"var"], n_vec = n_wt_vec, unbiased = var_unbiased)[c(1,6)]), c("mean", "var"))
art_desc <- c(art_desc,
var_e = as.numeric(mix_dist(mean_vec = art_desc_mat[,"mean"], var_vec = art_desc_mat[,"var_e"], n_vec = n_wt_vec, unbiased = var_unbiased))[6],
var_res = as.numeric(mix_dist(mean_vec = art_desc_mat[,"mean"], var_vec = art_desc_mat[,"var_res"], n_vec = n_wt_vec, unbiased = var_unbiased))[6],
total_n = sum(n_wt_vec), n_wt = as.numeric(n_wt))
}else{
art_desc <- setNames(c(art_desc_mat), colnames(art_desc_mat))
}
}else{
art_desc <- matrix(0, 0, 6)
colnames(art_desc) <- c("mean", "var", "var_e", "var_res", "total_n", "n_wt")
}
if(is.null(dim(art_desc))) art_desc <- t(art_desc)
art_desc
}
art_desc <- matrix(0, 0, 6)
colnames(art_desc) <- c("mean", "var", "var_e", "var_res", "total_n", "n_wt")
if(!is.null(rxxi)){
rxxi_consistency <- convert_reltype2consistency(rel_type = rxxi_type)
if(any(rxxi_consistency)){
rxxi_c <- rxxi[rxxi_consistency]
n_rxxi_c <- n_rxxi[rxxi_consistency]
wt_rxxi_c <- wt_rxxi[rxxi_consistency]
rxxi_type_c <- rxxi_type[rxxi_consistency]
k_items_rxxi_c <- k_items_rxxi[rxxi_consistency]
}else{
rxxi_c <- n_rxxi_c <- wt_rxxi_c <- NULL
rxxi_type_c <- k_items_rxxi_c <- NULL
}
if(any(!rxxi_consistency)){
rxxi_m <- rxxi[!rxxi_consistency]
n_rxxi_m <- n_rxxi[!rxxi_consistency]
wt_rxxi_m <- wt_rxxi[!rxxi_consistency]
rxxi_type_m <- rxxi_type[!rxxi_consistency]
k_items_rxxi_m <- k_items_rxxi[!rxxi_consistency]
}else{
rxxi_m <- n_rxxi_m <- wt_rxxi_m <- NULL
rxxi_type_m <- k_items_rxxi_m <- NULL
}
}else{
rxxi_c <- n_rxxi_c <- wt_rxxi_c <- NULL
rxxi_m <- n_rxxi_m <- wt_rxxi_m <- NULL
rxxi_type_c <- k_items_rxxi_c <- NULL
rxxi_type_m <- k_items_rxxi_m <- NULL
}
if(!is.null(mean_qxi)){
qxi_dist_consistency <- convert_reltype2consistency(rel_type = qxi_dist_type)
if(any(qxi_dist_consistency)){
mean_qxi_c <- mean_qxi[qxi_dist_consistency]
var_qxi_c <- var_qxi[qxi_dist_consistency]
k_qxi_c <- k_qxi[qxi_dist_consistency]
mean_n_qxi_c <- mean_n_qxi[qxi_dist_consistency]
qxi_dist_type_c <- qxi_dist_type[qxi_dist_consistency]
mean_k_items_qxi_c <- mean_k_items_qxi[qxi_dist_consistency]
}else{
mean_qxi_c <- var_qxi_c <- k_qxi_c <- mean_n_qxi_c <- NULL
qxi_dist_type_c <- mean_k_items_qxi_c <- NULL
}
if(any(!qxi_dist_consistency)){
mean_qxi_m <- mean_qxi[!qxi_dist_consistency]
var_qxi_m <- var_qxi[!qxi_dist_consistency]
k_qxi_m <- k_qxi[!qxi_dist_consistency]
mean_n_qxi_m <- mean_n_qxi[!qxi_dist_consistency]
qxi_dist_type_m <- qxi_dist_type[!qxi_dist_consistency]
mean_k_items_qxi_m <- mean_k_items_qxi[!qxi_dist_consistency]
}else{
mean_qxi_m <- var_qxi_m <- k_qxi_m <- mean_n_qxi_m <- NULL
qxi_dist_type_m <- mean_k_items_qxi_m <- NULL
}
}else{
mean_qxi_c <- var_qxi_c <- k_qxi_c <- mean_n_qxi_c <- NULL
mean_qxi_m <- var_qxi_m <- k_qxi_m <- mean_n_qxi_m <- NULL
qxi_dist_type_c <- mean_k_items_qxi_c <- NULL
qxi_dist_type_m <- mean_k_items_qxi_m <- NULL
}
if(!is.null(mean_rxxi)){
rxxi_dist_consistency <- convert_reltype2consistency(rel_type = rxxi_dist_type)
if(any(rxxi_dist_consistency)){
mean_rxxi_c <- mean_rxxi[rxxi_dist_consistency]
var_rxxi_c <- var_rxxi[rxxi_dist_consistency]
k_rxxi_c <- k_rxxi[rxxi_dist_consistency]
mean_n_rxxi_c <- mean_n_rxxi[rxxi_dist_consistency]
rxxi_dist_type_c <- rxxi_dist_type[rxxi_dist_consistency]
mean_k_items_rxxi_c <- mean_k_items_rxxi[rxxi_dist_consistency]
}else{
mean_rxxi_c <- var_rxxi_c <- k_rxxi_c <- mean_n_rxxi_c <- NULL
rxxi_dist_type_c <- mean_k_items_rxxi_c <- NULL
}
if(any(!rxxi_dist_consistency)){
mean_rxxi_m <- mean_rxxi[!rxxi_dist_consistency]
var_rxxi_m <- var_rxxi[!rxxi_dist_consistency]
k_rxxi_m <- k_rxxi[!rxxi_dist_consistency]
mean_n_rxxi_m <- mean_n_rxxi[!rxxi_dist_consistency]
rxxi_dist_type_m <- rxxi_dist_type[!rxxi_dist_consistency]
mean_k_items_rxxi_m <- mean_k_items_rxxi[!rxxi_dist_consistency]
}else{
mean_rxxi_m <- var_rxxi_m <- k_rxxi_m <- mean_n_rxxi_m <- NULL
rxxi_dist_type_m <- mean_k_items_rxxi_m <- NULL
}
}else{
mean_rxxi_c <- var_rxxi_c <- k_rxxi_c <- mean_n_rxxi_c <- NULL
mean_rxxi_m <- var_rxxi_m <- k_rxxi_m <- mean_n_rxxi_m <- NULL
rxxi_dist_type_c <- mean_k_items_rxxi_c <- NULL
rxxi_dist_type_m <- mean_k_items_rxxi_m <- NULL
}
if(!is.null(rxxa)){
rxxa_consistency <- convert_reltype2consistency(rel_type = rxxa_type)
if(any(rxxa_consistency)){
rxxa_c <- rxxa[rxxa_consistency]
n_rxxa_c <- n_rxxa[rxxa_consistency]
wt_rxxa_c <- wt_rxxa[rxxa_consistency]
rxxa_type_c <- rxxa_type[rxxa_consistency]
k_items_rxxa_c <- k_items_rxxa[rxxa_consistency]
}else{
rxxa_c <- n_rxxa_c <- wt_rxxa_c <- NULL
rxxa_type_c <- k_items_rxxa_c <- NULL
}
if(any(!rxxa_consistency)){
rxxa_m <- rxxa[!rxxa_consistency]
n_rxxa_m <- n_rxxa[!rxxa_consistency]
wt_rxxa_m <- wt_rxxa[!rxxa_consistency]
rxxa_type_m <- rxxa_type[!rxxa_consistency]
k_items_rxxa_m <- k_items_rxxa[!rxxa_consistency]
}else{
rxxa_m <- n_rxxa_m <- wt_rxxa_m <- NULL
rxxa_type_m <- k_items_rxxa_m <- NULL
}
}else{
rxxa_c <- n_rxxa_c <- wt_rxxa_c <- NULL
rxxa_m <- n_rxxa_m <- wt_rxxa_m <- NULL
rxxa_type_c <- k_items_rxxa_c <- NULL
rxxa_type_m <- k_items_rxxa_m <- NULL
}
if(!is.null(mean_qxa)){
qxa_dist_consistency <- convert_reltype2consistency(rel_type = qxa_dist_type)
if(any(qxa_dist_consistency)){
mean_qxa_c <- mean_qxa[qxa_dist_consistency]
var_qxa_c <- var_qxa[qxa_dist_consistency]
k_qxa_c <- k_qxa[qxa_dist_consistency]
mean_n_qxa_c <- mean_n_qxa[qxa_dist_consistency]
qxa_dist_type_c <- qxa_dist_type[qxa_dist_consistency]
mean_k_items_qxa_c <- mean_k_items_qxa[qxa_dist_consistency]
}else{
mean_qxa_c <- var_qxa_c <- k_qxa_c <- mean_n_qxa_c <- NULL
qxa_dist_type_c <- mean_k_items_qxa_c <- NULL
}
if(any(!qxa_dist_consistency)){
mean_qxa_m <- mean_qxa[!qxa_dist_consistency]
var_qxa_m <- var_qxa[!qxa_dist_consistency]
k_qxa_m <- k_qxa[!qxa_dist_consistency]
mean_n_qxa_m <- mean_n_qxa[!qxa_dist_consistency]
qxa_dist_type_m <- qxa_dist_type[!qxa_dist_consistency]
mean_k_items_qxa_m <- mean_k_items_qxa[!qxa_dist_consistency]
}else{
mean_qxa_m <- var_qxa_m <- k_qxa_m <- mean_n_qxa_m <- NULL
qxa_dist_type_m <- mean_k_items_qxa_m <- NULL
}
}else{
mean_qxa_c <- var_qxa_c <- k_qxa_c <- mean_n_qxa_c <- NULL
mean_qxa_m <- var_qxa_m <- k_qxa_m <- mean_n_qxa_m <- NULL
qxa_dist_type_c <- mean_k_items_qxa_c <- NULL
qxa_dist_type_m <- mean_k_items_qxa_m <- NULL
}
if(!is.null(mean_rxxa)){
rxxa_dist_consistency <- convert_reltype2consistency(rel_type = rxxa_dist_type)
if(any(rxxa_dist_consistency)){
mean_rxxa_c <- mean_rxxa[rxxa_dist_consistency]
var_rxxa_c <- var_rxxa[rxxa_dist_consistency]
k_rxxa_c <- k_rxxa[rxxa_dist_consistency]
mean_n_rxxa_c <- mean_n_rxxa[rxxa_dist_consistency]
rxxa_dist_type_c <- rxxa_dist_type[rxxa_dist_consistency]
mean_k_items_rxxa_c <- mean_k_items_rxxa[rxxa_dist_consistency]
}else{
mean_rxxa_c <- var_rxxa_c <- k_rxxa_c <- mean_n_rxxa_c <- NULL
rxxa_dist_type_c <- mean_k_items_rxxa_c <- NULL
}
if(any(!rxxa_dist_consistency)){
mean_rxxa_m <- mean_rxxa[!rxxa_dist_consistency]
var_rxxa_m <- var_rxxa[!rxxa_dist_consistency]
k_rxxa_m <- k_rxxa[!rxxa_dist_consistency]
mean_n_rxxa_m <- mean_n_rxxa[!rxxa_dist_consistency]
rxxa_dist_type_m <- rxxa_dist_type[!rxxa_dist_consistency]
mean_k_items_rxxa_m <- mean_k_items_rxxa[!rxxa_dist_consistency]
}else{
mean_rxxa_m <- var_rxxa_m <- k_rxxa_m <- mean_n_rxxa_m <- NULL
rxxa_dist_type_m <- mean_k_items_rxxa_m <- NULL
}
}else{
mean_rxxa_c <- var_rxxa_c <- k_rxxa_c <- mean_n_rxxa_c <- NULL
mean_rxxa_m <- var_rxxa_m <- k_rxxa_m <- mean_n_rxxa_m <- NULL
rxxa_dist_type_c <- mean_k_items_rxxa_c <- NULL
rxxa_dist_type_m <- mean_k_items_rxxa_m <- NULL
}
.replace_null <- function(x){
if(length(x) == 0){
NULL
}else{
x
}
}
rxxi_c <- .replace_null(x = rxxi_c)
n_rxxi_c <- .replace_null(x = n_rxxi_c)
wt_rxxi_c <- .replace_null(x = wt_rxxi_c)
mean_qxi_c <- .replace_null(x = mean_qxi_c)
var_qxi_c <- .replace_null(x = var_qxi_c)
k_qxi_c <- .replace_null(x = k_qxi_c)
mean_n_qxi_c <- .replace_null(x = mean_n_qxi_c)
mean_rxxi_c <- .replace_null(x = mean_rxxi_c)
var_rxxi_c <- .replace_null(x = var_rxxi_c)
k_rxxi_c <- .replace_null(x = k_rxxi_c)
mean_n_rxxi_c <- .replace_null(x = mean_n_rxxi_c)
rxxa_c <- .replace_null(x = rxxa_c)
n_rxxa_c <- .replace_null(x = n_rxxa_c)
wt_rxxa_c <- .replace_null(x = wt_rxxa_c)
mean_qxa_c <- .replace_null(x = mean_qxa_c)
var_qxa_c <- .replace_null(x = var_qxa_c)
k_qxa_c <- .replace_null(x = k_qxa_c)
mean_n_qxa_c <- .replace_null(x = mean_n_qxa_c)
mean_rxxa_c <- .replace_null(x = mean_rxxa_c)
var_rxxa_c <- .replace_null(x = var_rxxa_c)
k_rxxa_c <- .replace_null(x = k_rxxa_c)
mean_n_rxxa_c <- .replace_null(x = mean_n_rxxa_c)
rxxi_m <- .replace_null(x = rxxi_m)
n_rxxi_m <- .replace_null(x = n_rxxi_m)
wt_rxxi_m <- .replace_null(x = wt_rxxi_m)
mean_qxi_m <- .replace_null(x = mean_qxi_m)
var_qxi_m <- .replace_null(x = var_qxi_m)
k_qxi_m <- .replace_null(x = k_qxi_m)
mean_n_qxi_m <- .replace_null(x = mean_n_qxi_m)
mean_rxxi_m <- .replace_null(x = mean_rxxi_m)
var_rxxi_m <- .replace_null(x = var_rxxi_m)
k_rxxi_m <- .replace_null(x = k_rxxi_m)
mean_n_rxxi_m <- .replace_null(x = mean_n_rxxi_m)
rxxa_m <- .replace_null(x = rxxa_m)
n_rxxa_m <- .replace_null(x = n_rxxa_m)
wt_rxxa_m <- .replace_null(x = wt_rxxa_m)
mean_qxa_m <- .replace_null(x = mean_qxa_m)
var_qxa_m <- .replace_null(x = var_qxa_m)
k_qxa_m <- .replace_null(x = k_qxa_m)
mean_n_qxa_m <- .replace_null(x = mean_n_qxa_m)
mean_rxxa_m <- .replace_null(x = mean_rxxa_m)
var_rxxa_m <- .replace_null(x = var_rxxa_m)
k_rxxa_m <- .replace_null(x = k_rxxa_m)
mean_n_rxxa_m <- .replace_null(x = mean_n_rxxa_m)
## All reliability indices
qxa_desc <- art_summary(art_vec = rxxa, wt_vec = wt_rxxa, ni_vec = n_rxxa, art_type = rxxa_type, k_items = k_items_rxxa,
mean_art_1 = mean_qxa, var_art_1 = var_qxa, k_art_1 = k_qxa, mean_ni_art_1 = mean_n_qxa, dist_type_1 = qxa_dist_type, mean_k_items_art_1 = mean_k_items_qxa,
mean_art_2 = mean_rxxa, var_art_2 = var_rxxa, k_art_2 = k_rxxa, mean_n_art_2 = mean_n_rxxa, dist_type_2 = rxxa_dist_type, mean_k_items_art_2 = mean_k_items_rxxa,
art = "q", var_unbiased = var_unbiased)
qxi_desc <- art_summary(art_vec = rxxi, wt_vec = wt_rxxi, ni_vec = n_rxxi, art_type = rxxi_type, k_items = k_items_rxxi,
mean_art_1 = mean_qxi, var_art_1 = var_qxi, k_art_1 = k_qxi, mean_ni_art_1 = mean_n_qxi, dist_type_1 = qxi_dist_type, mean_k_items_art_1 = mean_k_items_qxi,
mean_art_2 = mean_rxxi, var_art_2 = var_rxxi, k_art_2 = k_rxxi, mean_n_art_2 = mean_n_rxxi, dist_type_2 = rxxi_dist_type, mean_k_items_art_2 = mean_k_items_rxxi,
art = "q", var_unbiased = var_unbiased)
## All reliability coefficients
rxxa_desc <- art_summary(art_vec = rxxa, wt_vec = wt_rxxa, ni_vec = n_rxxa, art_type = rxxa_type, k_items = k_items_rxxa,
mean_art_1 = mean_rxxa, var_art_1 = var_rxxa, k_art_1 = k_rxxa, mean_ni_art_1 = mean_n_rxxa, dist_type_1 = rxxa_dist_type, mean_k_items_art_1 = mean_k_items_rxxa,
mean_art_2 = mean_qxa, var_art_2 = var_qxa, k_art_2 = k_qxa, mean_n_art_2 = mean_n_qxa, dist_type_2 = qxa_dist_type, mean_k_items_art_2 = mean_k_items_qxa,
art = "rel", var_unbiased = var_unbiased)
rxxi_desc <- art_summary(art_vec = rxxi, wt_vec = wt_rxxi, ni_vec = n_rxxi, art_type = rxxi_type, k_items = k_items_rxxi,
mean_art_1 = mean_rxxi, var_art_1 = var_rxxi, k_art_1 = k_rxxi, mean_ni_art_1 = mean_n_rxxi, dist_type_1 = rxxi_dist_type, mean_k_items_art_1 = mean_k_items_rxxi,
mean_art_2 = mean_qxi, var_art_2 = var_qxi, k_art_2 = k_qxi, mean_n_art_2 = mean_n_qxi, dist_type_2 = qxi_dist_type, mean_k_items_art_2 = mean_k_items_qxi,
art = "rel", var_unbiased = var_unbiased)
## Consistency estimates of reliability indices
qxa_desc_c <- art_summary(art_vec = rxxa_c, wt_vec = wt_rxxa_c, ni_vec = n_rxxa_c, art_type = rxxa_type_c, k_items = k_items_rxxa_c,
mean_art_1 = mean_qxa_c, var_art_1 = var_qxa_c, k_art_1 = k_qxa_c, mean_ni_art_1 = mean_n_qxa_c, dist_type_1 = qxa_dist_type_c, mean_k_items_art_1 = mean_k_items_qxa_c,
mean_art_2 = mean_rxxa_c, var_art_2 = var_rxxa_c, k_art_2 = k_rxxa_c, mean_n_art_2 = mean_n_rxxa_c, dist_type_2 = rxxa_dist_type_c, mean_k_items_art_2 = mean_k_items_rxxa_c,
art = "q", var_unbiased = var_unbiased)
qxi_desc_c <- art_summary(art_vec = rxxi_c, wt_vec = wt_rxxi_c, ni_vec = n_rxxi_c, art_type = rxxi_type_c, k_items = k_items_rxxi_c,
mean_art_1 = mean_qxi_c, var_art_1 = var_qxi_c, k_art_1 = k_qxi_c, mean_ni_art_1 = mean_n_qxi_c, dist_type_1 = qxi_dist_type_c, mean_k_items_art_1 = mean_k_items_qxi_c,
mean_art_2 = mean_rxxi_c, var_art_2 = var_rxxi_c, k_art_2 = k_rxxi_c, mean_n_art_2 = mean_n_rxxi_c, dist_type_2 = rxxi_dist_type_c, mean_k_items_art_2 = mean_k_items_rxxi_c,
art = "q", var_unbiased = var_unbiased)
## Multi-administration estimates of reliability indices
qxa_desc_m <- art_summary(art_vec = rxxa_m, wt_vec = wt_rxxa_m, ni_vec = n_rxxa_m, art_type = rxxa_type_m, k_items = k_items_rxxa_m,
mean_art_1 = mean_qxa_m, var_art_1 = var_qxa_m, k_art_1 = k_qxa_m, mean_ni_art_1 = mean_n_qxa_m, dist_type_1 = qxa_dist_type_m, mean_k_items_art_1 = mean_k_items_qxa_m,
mean_art_2 = mean_rxxa_m, var_art_2 = var_rxxa_m, k_art_2 = k_rxxa_m, mean_n_art_2 = mean_n_rxxa_m, dist_type_2 = rxxa_dist_type_m, mean_k_items_art_2 = mean_k_items_rxxa_m,
art = "q", var_unbiased = var_unbiased)
qxi_desc_m <- art_summary(art_vec = rxxi_m, wt_vec = wt_rxxi_m, ni_vec = n_rxxi_m, art_type = rxxi_type_m, k_items = k_items_rxxi_m,
mean_art_1 = mean_qxi_m, var_art_1 = var_qxi_m, k_art_1 = k_qxi_m, mean_ni_art_1 = mean_n_qxi_m, dist_type_1 = qxi_dist_type_m, mean_k_items_art_1 = mean_k_items_qxi_m,
mean_art_2 = mean_rxxi_m, var_art_2 = var_rxxi_m, k_art_2 = k_rxxi_m, mean_n_art_2 = mean_n_rxxi_m, dist_type_2 = rxxi_dist_type_m, mean_k_items_art_2 = mean_k_items_rxxi_m,
art = "q", var_unbiased = var_unbiased)
## Consistency estimates of reliability coefficients
rxxa_desc_c <- art_summary(art_vec = rxxa_c, wt_vec = wt_rxxa_c, ni_vec = n_rxxa_c, art_type = rxxa_type_c, k_items = k_items_rxxa_c,
mean_art_1 = mean_rxxa_c, var_art_1 = var_rxxa_c, k_art_1 = k_rxxa_c, mean_ni_art_1 = mean_n_rxxa_c, dist_type_1 = rxxa_dist_type_c, mean_k_items_art_1 = mean_k_items_rxxa_c,
mean_art_2 = mean_qxa_c, var_art_2 = var_qxa_c, k_art_2 = k_qxa_c, mean_n_art_2 = mean_n_qxa_c, dist_type_2 = qxa_dist_type_c, mean_k_items_art_2 = mean_k_items_qxa_c,
art = "rel", var_unbiased = var_unbiased)
rxxi_desc_c <- art_summary(art_vec = rxxi_c, wt_vec = wt_rxxi_c, ni_vec = n_rxxi_c, art_type = rxxi_type_c, k_items = k_items_rxxi_c,
mean_art_1 = mean_rxxi_c, var_art_1 = var_rxxi_c, k_art_1 = k_rxxi_c, mean_ni_art_1 = mean_n_rxxi_c, dist_type_1 = rxxi_dist_type_c, mean_k_items_art_1 = mean_k_items_rxxi_c,
mean_art_2 = mean_qxi_c, var_art_2 = var_qxi_c, k_art_2 = k_qxi_c, mean_n_art_2 = mean_n_qxi_c, dist_type_2 = qxi_dist_type_c, mean_k_items_art_2 = mean_k_items_qxi_c,
art = "rel", var_unbiased = var_unbiased)
## Multi-administration estimates of reliability coefficients
rxxa_desc_m <- art_summary(art_vec = rxxa_m, wt_vec = wt_rxxa_m, ni_vec = n_rxxa_m, art_type = rxxa_type_m, k_items = k_items_rxxa_m,
mean_art_1 = mean_rxxa_m, var_art_1 = var_rxxa_m, k_art_1 = k_rxxa_m, mean_ni_art_1 = mean_n_rxxa_m, dist_type_1 = rxxa_dist_type_m, mean_k_items_art_1 = mean_k_items_rxxa_m,
mean_art_2 = mean_qxa_m, var_art_2 = var_qxa_m, k_art_2 = k_qxa_m, mean_n_art_2 = mean_n_qxa_m, dist_type_2 = qxa_dist_type_m, mean_k_items_art_2 = mean_k_items_qxa_m,
art = "rel", var_unbiased = var_unbiased)
rxxi_desc_m <- art_summary(art_vec = rxxi_m, wt_vec = wt_rxxi_m, ni_vec = n_rxxi_m, art_type = rxxi_type_m, k_items = k_items_rxxi_m,
mean_art_1 = mean_rxxi_m, var_art_1 = var_rxxi_m, k_art_1 = k_rxxi_m, mean_ni_art_1 = mean_n_rxxi_m, dist_type_1 = rxxi_dist_type_m, mean_k_items_art_1 = mean_k_items_rxxi_m,
mean_art_2 = mean_qxi_m, var_art_2 = var_qxi_m, k_art_2 = k_qxi_m, mean_n_art_2 = mean_n_qxi_m, dist_type_2 = qxi_dist_type_m, mean_k_items_art_2 = mean_k_items_qxi_m,
art = "rel", var_unbiased = var_unbiased)
## u ratios
ux_desc <- art_summary(art_vec = ux, wt_vec = wt_ux, ni_vec = ni_ux, na_vec = na_ux, dependent_sds = dep_sds_ux_obs,
mean_art_1 = mean_ux, var_art_1 = var_ux, k_art_1 = k_ux,
mean_ni_art_1 = mean_ni_ux, mean_na_art_1 = mean_na_ux, dependent_sds_art_1 = dep_sds_ux_spec, art = "u", var_unbiased = var_unbiased)
ut_desc <- art_summary(art_vec = ut, wt_vec = wt_ut, ni_vec = ni_ut, na_vec = na_ut, dependent_sds = dep_sds_ut_obs,
mean_art_1 = mean_ut, var_art_1 = var_ut, k_art_1 = k_ut,
mean_ni_art_1 = mean_ni_ut, mean_na_art_1 = mean_na_ut, dependent_sds_art_1 = dep_sds_ut_spec, art = "u", var_unbiased = var_unbiased)
est_summaries <- function(qxi_desc, qxa_desc,
rxxi_desc, rxxa_desc,
qxi_desc_c, qxa_desc_c,
rxxi_desc_c, rxxa_desc_c,
qxi_desc_m, qxa_desc_m,
rxxi_desc_m, rxxa_desc_m,
ux_desc, ut_desc,
estimate_rxxa = TRUE, estimate_rxxi = TRUE,
estimate_ux = TRUE, estimate_ut = TRUE){
filler <- matrix(0, 0, 5)
colnames(filler) <- c("mean", "var", "var_e", "var_res", "wt")
ux_wt <- as.numeric(ifelse(nrow(ux_desc) > 0, ifelse(ux_desc[,"n_wt"] == 1, ux_desc[,"total_n"], 1), 0))
ut_wt <- as.numeric(ifelse(nrow(ut_desc) > 0, ifelse(ut_desc[,"n_wt"] == 1, ut_desc[,"total_n"], 1), 0))
p_ux <- ux_wt / (ux_wt + ut_wt)
p_ut <- ut_wt / (ux_wt + ut_wt)
qxa_wt <- as.numeric(ifelse(nrow(qxa_desc) > 0, ifelse(qxa_desc[,"n_wt"] == 1, qxa_desc[,"total_n"], 1), 0))
qxa_wt_c <- as.numeric(ifelse(nrow(qxa_desc_c) > 0, ifelse(qxa_desc_c[,"n_wt"] == 1, qxa_desc_c[,"total_n"], 1), 0))
qxa_wt_m <- as.numeric(ifelse(nrow(qxa_desc_m) > 0, ifelse(qxa_desc_m[,"n_wt"] == 1, qxa_desc_m[,"total_n"], 1), 0))
qxi_wt <- as.numeric(ifelse(nrow(qxi_desc) > 0, ifelse(qxi_desc[,"n_wt"] == 1, qxi_desc[,"total_n"], 1), 0))
qxi_wt_c <- as.numeric(ifelse(nrow(qxi_desc_c) > 0, ifelse(qxi_desc_c[,"n_wt"] == 1, qxi_desc_c[,"total_n"], 1), 0))
qxi_wt_m <- as.numeric(ifelse(nrow(qxi_desc_m) > 0, ifelse(qxi_desc_m[,"n_wt"] == 1, qxi_desc_m[,"total_n"], 1), 0))
p_qxa <- qxa_wt / (qxi_wt + qxa_wt)
p_qxi <- qxi_wt / (qxi_wt + qxa_wt)
p_ux[is.na(p_ux)] <- p_ut[is.na(p_ut)] <- p_qxa[is.na(p_qxa)] <- p_qxi[is.na(p_qxi)] <- 0
if(nrow(qxa_desc) > 0){
qxa_desc <- t(c(qxa_desc[,1:4], wt = qxa_wt))
rxxa_desc <- t(c(rxxa_desc[,1:4], wt = qxa_wt))
}else{
qxa_desc <- rxxa_desc <- filler
}
if(nrow(qxa_desc_c) > 0){
qxa_desc_c <- t(c(qxa_desc_c[,1:4], wt = qxa_wt_c))
rxxa_desc_c <- t(c(rxxa_desc_c[,1:4], wt = qxa_wt_c))
}else{
qxa_desc_c <- rxxa_desc_c <- filler
}
if(nrow(qxa_desc_m) > 0){
qxa_desc_m <- t(c(qxa_desc_m[,1:4], wt = qxa_wt_m))
rxxa_desc_m <- t(c(rxxa_desc_m[,1:4], wt = qxa_wt_m))
}else{
qxa_desc_m <- rxxa_desc_m <- filler
}
if(nrow(qxi_desc) > 0){
qxi_desc <- t(c(qxi_desc[,1:4], wt = qxi_wt))
rxxi_desc <- t(c(rxxi_desc[,1:4], wt = qxi_wt))
}else{
qxi_desc <- rxxi_desc <- filler
}
if(nrow(qxi_desc_c) > 0){
qxi_desc_c <- t(c(qxi_desc_c[,1:4], wt = qxi_wt_c))
rxxi_desc_c <- t(c(rxxi_desc_c[,1:4], wt = qxi_wt_c))
}else{
qxi_desc_c <- rxxi_desc_c <- filler
}
if(nrow(qxi_desc_m) > 0){
qxi_desc_m <- t(c(qxi_desc_m[,1:4], wt = qxi_wt_m))
rxxi_desc_m <- t(c(rxxi_desc_m[,1:4], wt = qxi_wt_m))
}else{
qxi_desc_m <- rxxi_desc_m <- filler
}
if(nrow(ux_desc) > 0){
ux_desc <- t(c(ux_desc[,1:4], wt = ux_wt))
}else{
ux_desc <- filler
}
if(nrow(ut_desc) > 0){
ut_desc <- t(c(ut_desc[,1:4], wt = ut_wt))
}else{
ut_desc <- filler
}
if(estimate_rxxa){
if(nrow(qxi_desc) > 0 & nrow(ux_desc) > 0){
est_mean_qxa_irr <- estimate_rxxa(rxxi = qxi_desc[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)^.5
est_var_qxa_irr <- estimate_var_qxa_ux(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_qxa_irr <- estimate_var_qxa_ux(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_qxa_irr <- estimate_var_qxa_ux(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_qxa_desc_ux_irr <- t(c(mean = est_mean_qxa_irr, var = est_var_qxa_irr, var_e = est_var_e_qxa_irr, var_res = est_var_res_qxa_irr, wt = as.numeric(p_ux * qxi_desc[,"wt"])))
if(nrow(qxi_desc_c) > 0){
est_mean_qxa_drr_c <- estimate_rxxa(rxxi = qxi_desc_c[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")^.5
est_var_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_e_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_res_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "internal_consistency")
est_qxa_desc_ux_drr_c <- t(c(mean = est_mean_qxa_drr_c, var = est_var_qxa_drr_c, var_e = est_var_e_qxa_drr_c, var_res = est_var_res_qxa_drr_c, wt = as.numeric(p_ux * qxi_desc_c[,"wt"])))
}else{
est_qxa_desc_ux_drr_c <- filler
}
if(nrow(qxi_desc_m) > 0){
est_mean_qxa_drr_m <- estimate_rxxa(rxxi = qxi_desc_m[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")^.5
est_var_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_e_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_res_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_qxa_desc_ux_drr_m <- t(c(mean = est_mean_qxa_drr_m, var = est_var_qxa_drr_m, var_e = est_var_e_qxa_drr_m, var_res = est_var_res_qxa_drr_m, wt = as.numeric(p_ux * qxi_desc_m[,"wt"])))
}else{
est_qxa_desc_ux_drr_m <- filler
}
est_mean_rxxa_irr <- estimate_rxxa(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)
est_var_rxxa_irr <- estimate_var_rxxa_ux(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_rxxa_irr <- estimate_var_rxxa_ux(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_rxxa_irr <- estimate_var_rxxa_ux(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_rxxa_desc_ux_irr <- t(c(mean = est_mean_rxxa_irr, var = est_var_rxxa_irr, var_e = est_var_e_rxxa_irr, var_res = est_var_res_rxxa_irr, wt = as.numeric(p_ux * rxxi_desc[,"wt"])))
if(nrow(rxxi_desc_c) > 0){
est_mean_rxxa_drr_c <- estimate_rxxa(rxxi = rxxi_desc_c[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_e_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_res_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_rxxa_desc_ux_drr_c <- t(c(mean = est_mean_rxxa_drr_c, var = est_var_rxxa_drr_c, var_e = est_var_e_rxxa_drr_c, var_res = est_var_res_rxxa_drr_c, wt = as.numeric(p_ux * rxxi_desc_c[,"wt"])))
}else{
est_rxxa_desc_ux_drr_c <- filler
}
if(nrow(rxxi_desc_m) > 0){
est_mean_rxxa_drr_m <- estimate_rxxa(rxxi = rxxi_desc_m[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_e_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_res_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_rxxa_desc_ux_drr_m <- t(c(mean = est_mean_rxxa_drr_m, var = est_var_rxxa_drr_m, var_e = est_var_e_rxxa_drr_m, var_res = est_var_res_rxxa_drr_m, wt = as.numeric(p_ux * rxxi_desc_m[,"wt"])))
}else{
est_rxxa_desc_ux_drr_m <- filler
}
}else{
est_qxa_desc_ux_irr <- est_rxxa_desc_ux_irr <- filler
est_qxa_desc_ux_drr_c <- est_qxa_desc_ux_drr_m <- filler
est_rxxa_desc_ux_drr_c <- est_rxxa_desc_ux_drr_m <- filler
}
if(nrow(qxi_desc) > 0 & nrow(ut_desc) > 0){
est_mean_qxa <- estimate_rxxa(rxxi = qxi_desc[,"mean"]^2, ux = ut_desc[,"mean"], ux_observed = FALSE)^.5
est_var_qxa <- estimate_var_qxa_ut(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_qxa <- estimate_var_qxa_ut(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_qxa <- estimate_var_qxa_ut(qxi = qxi_desc[,"mean"], var_qxi = qxi_desc[,"var_res"], ut = ut_desc[,"mean"])
est_qxa_desc_ut_irr <- t(c(mean = est_mean_qxa, var = est_var_qxa, var_e = est_var_e_qxa, var_res = est_var_res_qxa, wt = as.numeric(p_ut * qxi_desc[,"wt"])))
if(nrow(qxi_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxi_desc_c[,"mean"]^2, rxx_restricted = TRUE)
est_mean_qxa_drr_c <- estimate_rxxa(rxxi = qxi_desc_c[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")^.5
est_var_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_e_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "internal_consistency")
est_var_res_qxa_drr_c <- estimate_var_qxa_ux(qxi = qxi_desc_c[,"mean"], var_qxi = qxi_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "internal_consistency")
est_qxa_desc_ut_drr_c <- t(c(mean = est_mean_qxa_drr_c, var = est_var_qxa_drr_c, var_e = est_var_e_qxa_drr_c, var_res = est_var_res_qxa_drr_c, wt = as.numeric(p_ut * qxi_desc_c[,"wt"])))
}else{
est_qxa_desc_ut_drr_c <- filler
}
if(nrow(qxi_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxi_desc_m[,"mean"]^2, rxx_restricted = TRUE)
est_mean_qxa_drr_m <- estimate_rxxa(rxxi = qxi_desc_m[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")^.5
est_var_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_e_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_var_res_qxa_drr_m <- estimate_var_qxa_ux(qxi = qxi_desc_m[,"mean"], var_qxi = qxi_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxi_type = "multiple_administrations")
est_qxa_desc_ut_drr_m <- t(c(mean = est_mean_qxa_drr_m, var = est_var_qxa_drr_m, var_e = est_var_e_qxa_drr_m, var_res = est_var_res_qxa_drr_m, wt = as.numeric(p_ut * qxi_desc_m[,"wt"])))
}else{
est_qxa_desc_ut_drr_m <- filler
}
est_mean_rxxa <- estimate_rxxa(rxxi = rxxi_desc[,"mean"], ux = ut_desc[,"mean"], ux_observed = FALSE)
est_var_rxxa <- estimate_var_rxxa_ut(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_rxxa <- estimate_var_rxxa_ut(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_rxxa <- estimate_var_rxxa_ut(rxxi = rxxi_desc[,"mean"], var_rxxi = rxxi_desc[,"var_res"], ut = ut_desc[,"mean"])
est_rxxa_desc_ut_irr <- t(c(mean = est_mean_rxxa, var = est_var_rxxa, var_e = est_var_e_rxxa, var_res = est_var_res_rxxa, wt = as.numeric(p_ut * qxi_desc[,"wt"])))
if(nrow(rxxi_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxi_desc_c[,"mean"], rxx_restricted = TRUE)
est_mean_rxxa_drr_c <- estimate_rxxa(rxxi = rxxi_desc_c[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_e_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_var_res_rxxa_drr_c <- estimate_var_rxxa_ux(rxxi = rxxi_desc_c[,"mean"], var_rxxi = rxxi_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "internal_consistency")
est_rxxa_desc_ut_drr_c <- t(c(mean = est_mean_rxxa_drr_c, var = est_var_rxxa_drr_c, var_e = est_var_e_rxxa_drr_c, var_res = est_var_res_rxxa_drr_c, wt = as.numeric(p_ut * rxxi_desc_c[,"wt"])))
}else{
est_rxxa_desc_ut_drr_c <- filler
}
if(nrow(rxxi_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxi_desc_m[,"mean"], rxx_restricted = TRUE)
est_mean_rxxa_drr_m <- estimate_rxxa(rxxi = rxxi_desc_m[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_e_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_var_res_rxxa_drr_m <- estimate_var_rxxa_ux(rxxi = rxxi_desc_m[,"mean"], var_rxxi = rxxi_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxi_type = "multiple_administrations")
est_rxxa_desc_ut_drr_m <- t(c(mean = est_mean_rxxa_drr_m, var = est_var_rxxa_drr_m, var_e = est_var_e_rxxa_drr_m, var_res = est_var_res_rxxa_drr_m, wt = as.numeric(p_ut * rxxi_desc_m[,"wt"])))
}else{
est_rxxa_desc_ut_drr_m <- filler
}
}else{
est_qxa_desc_ut_irr <- est_rxxa_desc_ut_irr <- filler
est_qxa_desc_ut_drr_c <- est_qxa_desc_ut_drr_m <- filler
est_rxxa_desc_ut_drr_c <- est_rxxa_desc_ut_drr_m <- filler
}
}else{
est_qxa_desc_ux_irr <- est_rxxa_desc_ux_irr <- filler
est_qxa_desc_ux_drr_c <- est_qxa_desc_ux_drr_m <- filler
est_rxxa_desc_ux_drr_c <- est_rxxa_desc_ux_drr_m <- filler
est_qxa_desc_ut_irr <- est_rxxa_desc_ut_irr <- filler
est_qxa_desc_ut_drr_c <- est_qxa_desc_ut_drr_m <- filler
est_rxxa_desc_ut_drr_c <- est_rxxa_desc_ut_drr_m <- filler
}
if(estimate_rxxi){
if(nrow(qxa_desc) > 0 & nrow(ux_desc) > 0){
est_mean_qxi_irr <- estimate_rxxi(rxxa = qxa_desc[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)^.5
est_var_qxi_irr <- estimate_var_qxi_ux(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_qxi_irr <- estimate_var_qxi_ux(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_qxi_irr <- estimate_var_qxi_ux(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_qxi_desc_ux_irr <- t(c(mean = est_mean_qxi_irr, var = est_var_qxi_irr, var_e = est_var_e_qxi_irr, var_res = est_var_res_qxi_irr, wt = as.numeric(p_ux * qxa_desc[,"wt"])))
if(nrow(qxa_desc_c) > 0){
est_mean_qxi_drr_c <- estimate_rxxi(rxxa = qxa_desc_c[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")^.5
est_var_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_e_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_res_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "internal_consistency")
est_qxi_desc_ux_drr_c <- t(c(mean = est_mean_qxi_drr_c, var = est_var_qxi_drr_c, var_e = est_var_e_qxi_drr_c, var_res = est_var_res_qxi_drr_c, wt = as.numeric(p_ux * qxa_desc_c[,"wt"])))
}else{
est_qxi_desc_ux_drr_c <- filler
}
if(nrow(qxa_desc_m) > 0){
est_mean_qxi_drr_m <- estimate_rxxi(rxxa = qxa_desc_m[,"mean"]^2, ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")^.5
est_var_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_e_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_res_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_qxi_desc_ux_drr_m <- t(c(mean = est_mean_qxi_drr_m, var = est_var_qxi_drr_m, var_e = est_var_e_qxi_drr_m, var_res = est_var_res_qxi_drr_m, wt = as.numeric(p_ux * qxa_desc_m[,"wt"])))
}else{
est_qxi_desc_ux_drr_m <- filler
}
est_mean_rxxi_irr <- estimate_rxxi(rxxa = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = TRUE)
est_var_rxxi_irr <- estimate_var_rxxi_ux(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_e_rxxi_irr <- estimate_var_rxxi_ux(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_var_res_rxxi_irr <- estimate_var_rxxi_ux(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = TRUE)
est_rxxi_desc_ux_irr <- t(c(mean = est_mean_rxxi_irr, var = est_var_rxxi_irr, var_e = est_var_e_rxxi_irr, var_res = est_var_res_rxxi_irr, wt = as.numeric(p_ux * qxa_desc[,"wt"])))
if(nrow(rxxa_desc_c) > 0){
est_mean_rxxi_drr_c <- estimate_rxxi(rxxa = rxxa_desc_c[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_e_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_res_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_rxxi_desc_ux_drr_c <- t(c(mean = est_mean_rxxi_drr_c, var = est_var_rxxi_drr_c, var_e = est_var_e_rxxi_drr_c, var_res = est_var_res_rxxi_drr_c, wt = as.numeric(p_ux * rxxa_desc_c[,"wt"])))
}else{
est_rxxi_desc_ux_drr_c <- filler
}
if(nrow(rxxa_desc_m) > 0){
est_mean_rxxi_drr_m <- estimate_rxxi(rxxa = rxxa_desc_m[,"mean"], ux = ux_desc[,"mean"], ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_e_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_e"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_res_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_res"], ux = ux_desc[,"mean"], indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_rxxi_desc_ux_drr_m <- t(c(mean = est_mean_rxxi_drr_m, var = est_var_rxxi_drr_m, var_e = est_var_e_rxxi_drr_m, var_res = est_var_res_rxxi_drr_m, wt = as.numeric(p_ux * rxxa_desc_m[,"wt"])))
}else{
est_rxxi_desc_ux_drr_m <- filler
}
}else{
est_qxi_desc_ux_irr <- est_rxxi_desc_ux_irr <- filler
est_qxi_desc_ux_drr_c <- est_qxi_desc_ux_drr_m <- filler
est_rxxi_desc_ux_drr_c <- est_rxxi_desc_ux_drr_m <- filler
}
if(nrow(qxa_desc) > 0 & nrow(ut_desc) > 0){
est_mean_qxi <- estimate_rxxi(rxxa = qxa_desc[,"mean"]^2, ux = ut_desc[,"mean"], ux_observed = FALSE)^.5
est_var_qxi <- estimate_var_qxi_ut(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_qxi <- estimate_var_qxi_ut(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_qxi <- estimate_var_qxi_ut(qxa = qxa_desc[,"mean"], var_qxa = qxa_desc[,"var_res"], ut = ut_desc[,"mean"])
est_qxi_desc_ut_irr <- t(c(mean = est_mean_qxi, var = est_var_qxi, var_e = est_var_e_qxi, var_res = est_var_res_qxi, wt = as.numeric(p_ut * qxa_desc[,"wt"])))
if(nrow(qxa_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxa_desc_c[,"mean"]^2, rxx_restricted = FALSE)
est_mean_qxi_drr_c <- estimate_rxxi(rxxa = qxa_desc_c[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")^.5
est_var_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_e_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "internal_consistency")
est_var_res_qxi_drr_c <- estimate_var_qxi_ux(qxa = qxa_desc_c[,"mean"], var_qxa = qxa_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "internal_consistency")
est_qxi_desc_ut_drr_c <- t(c(mean = est_mean_qxi_drr_c, var = est_var_qxi_drr_c, var_e = est_var_e_qxi_drr_c, var_res = est_var_res_qxi_drr_c, wt = as.numeric(p_ut * qxa_desc_c[,"wt"])))
}else{
est_qxi_desc_ut_drr_c <- filler
}
if(nrow(qxa_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = qxa_desc_m[,"mean"]^2, rxx_restricted = FALSE)
est_mean_qxi_drr_m <- estimate_rxxi(rxxa = qxa_desc_m[,"mean"]^2, ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")^.5
est_var_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_e_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_var_res_qxi_drr_m <- estimate_var_qxi_ux(qxa = qxa_desc_m[,"mean"], var_qxa = qxa_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, qxa_type = "multiple_administrations")
est_qxi_desc_ut_drr_m <- t(c(mean = est_mean_qxi_drr_m, var = est_var_qxi_drr_m, var_e = est_var_e_qxi_drr_m, var_res = est_var_res_qxi_drr_m, wt = as.numeric(p_ut * qxa_desc_m[,"wt"])))
}else{
est_qxi_desc_ut_drr_m <- filler
}
est_mean_rxxi <- estimate_rxxi(rxxa = rxxa_desc[,"mean"], ux = ut_desc[,"mean"], ux_observed = FALSE)
est_var_qxi <- estimate_var_rxxi_ut(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var"], ut = ut_desc[,"mean"])
est_var_e_qxi <- estimate_var_rxxi_ut(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_e"], ut = ut_desc[,"mean"])
est_var_res_qxi <- estimate_var_rxxi_ut(rxxa = rxxa_desc[,"mean"], var_rxxa = rxxa_desc[,"var_res"], ut = ut_desc[,"mean"])
est_rxxi_desc_ut_irr <- t(c(mean = est_mean_rxxi, var = est_var_qxi, var_e = est_var_e_qxi, var_res = est_var_res_qxi, wt = as.numeric(p_ut * qxa_desc[,"wt"])))
if(nrow(rxxa_desc_c) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxa_desc_c[,"mean"], rxx_restricted = FALSE)
est_mean_rxxi_drr_c <- estimate_rxxi(rxxa = rxxa_desc_c[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_e_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_var_res_rxxi_drr_c <- estimate_var_rxxi_ux(rxxa = rxxa_desc_c[,"mean"], var_rxxa = rxxa_desc_c[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "internal_consistency")
est_rxxi_desc_ut_drr_c <- t(c(mean = est_mean_rxxi_drr_c, var = est_var_rxxi_drr_c, var_e = est_var_e_rxxi_drr_c, var_res = est_var_res_rxxi_drr_c, wt = as.numeric(p_ut * rxxa_desc_c[,"wt"])))
}else{
est_rxxi_desc_ut_drr_c <- filler
}
if(nrow(rxxa_desc_m) > 0){
.ux_mean <- estimate_ux(ut = ut_desc[,"mean"], rxx = rxxa_desc_m[,"mean"], rxx_restricted = FALSE)
est_mean_rxxi_drr_m <- estimate_rxxi(rxxa = rxxa_desc_m[,"mean"], ux = .ux_mean, ux_observed = TRUE, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_e_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_e"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_var_res_rxxi_drr_m <- estimate_var_rxxi_ux(rxxa = rxxa_desc_m[,"mean"], var_rxxa = rxxa_desc_m[,"var_res"], ux = .ux_mean, indirect_rr = FALSE, rxxa_type = "multiple_administrations")
est_rxxi_desc_ut_drr_m <- t(c(mean = est_mean_rxxi_drr_m, var = est_var_rxxi_drr_m, var_e = est_var_e_rxxi_drr_m, var_res = est_var_res_rxxi_drr_m, wt = as.numeric(p_ut * rxxa_desc_m[,"wt"])))
}else{
est_rxxi_desc_ut_drr_m <- filler
}
}else{
est_qxi_desc_ut_irr <- est_rxxi_desc_ut_irr <- filler
est_qxi_desc_ut_drr_c <- est_qxi_desc_ut_drr_m <- filler
est_rxxi_desc_ut_drr_c <- est_rxxi_desc_ut_drr_m <- filler
}
}else{
est_qxi_desc_ux_irr <- est_rxxi_desc_ux_irr <- filler
est_qxi_desc_ux_drr_c <- est_qxi_desc_ux_drr_m <- filler
est_rxxi_desc_ux_drr_c <- est_rxxi_desc_ux_drr_m <- filler
est_qxi_desc_ut_irr <- est_rxxi_desc_ut_irr <- filler
est_qxi_desc_ut_drr_c <- est_qxi_desc_ut_drr_m <- filler
est_rxxi_desc_ut_drr_c <- est_rxxi_desc_ut_drr_m <- filler
}
if(estimate_ux){
if(nrow(qxi_desc) > 0 & nrow(ut_desc) > 0){
est_mean_ux <- estimate_ux(rxx = qxi_desc[,"mean"]^2, ut = ut_desc[,"mean"], rxx_restricted = TRUE)
est_var_ux <- estimate_var_ux_qxi(qxi = qxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_qxi(qxi = qxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_qxi(qxi = qxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_qxi <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxi * ut_desc[,"wt"])))
est_mean_ux <- estimate_ux(rxx = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], rxx_restricted = TRUE)
est_var_ux <- estimate_var_ux_rxxi(rxxi = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_rxxi(rxxi = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_rxxi(rxxi = rxxi_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_rxxi <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxi * ut_desc[,"wt"])))
est_ux_desc_qxi <- zapsmall((est_ux_desc_qxi + est_ux_desc_rxxi) / 2)
}else{
est_ux_desc_qxi <- filler
}
if(nrow(qxa_desc) > 0 & nrow(ut_desc) > 0){
est_mean_ux <- estimate_ux(rxx = qxa_desc[,"mean"]^2, ut = ut_desc[,"mean"], rxx_restricted = FALSE)
est_var_ux <- estimate_var_ux_qxa(qxa = qxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_qxa(qxa = qxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_qxa(qxa = qxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_qxa <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxa * ut_desc[,"wt"])))
est_mean_ux <- estimate_ux(rxx = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], rxx_restricted = FALSE)
est_var_ux <- estimate_var_ux_rxxa(rxxa = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var"])
est_var_e_ux <- estimate_var_ux_rxxa(rxxa = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_e"])
est_var_res_ux <- estimate_var_ux_rxxa(rxxa = rxxa_desc[,"mean"], ut = ut_desc[,"mean"], var_ut = ut_desc[,"var_res"])
est_ux_desc_rxxa <- t(c(mean = est_mean_ux, var = est_var_ux, var_e = est_var_e_ux, var_res = est_var_res_ux, wt = as.numeric(p_qxa * ut_desc[,"wt"])))
est_ux_desc_qxa <- zapsmall((est_ux_desc_qxa + est_ux_desc_rxxa) / 2)
}else{
est_ux_desc_qxa <- filler
}
}else{
est_ux_desc_qxi <- est_ux_desc_qxa <- filler
}
if(estimate_ut){
if(nrow(qxi_desc) > 0 & nrow(ux_desc) > 0){
est_mean_ut <- estimate_ut(rxx = qxi_desc[,"mean"]^2, ux = ux_desc[,"mean"], rxx_restricted = TRUE)
est_var_ut <- estimate_var_ut_qxi(qxi = qxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_qxi(qxi = qxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_qxi(qxi = qxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_qxi <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxi * ux_desc[,"wt"])))
est_mean_ut <- estimate_ut(rxx = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], rxx_restricted = TRUE)
est_var_ut <- estimate_var_ut_rxxi(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_rxxi(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_rxxi(rxxi = rxxi_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_rxxi <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxi * ux_desc[,"wt"])))
est_ut_desc_qxi <- zapsmall((est_ut_desc_qxi + est_ut_desc_rxxi) / 2)
}else{
est_ut_desc_qxi <- filler
}
if(nrow(qxa_desc) > 0 & nrow(ux_desc) > 0){
est_mean_ut <- estimate_ut(rxx = qxa_desc[,"mean"]^2, ux = ux_desc[,"mean"], rxx_restricted = FALSE)
est_var_ut <- estimate_var_ut_qxa(qxa = qxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_qxa(qxa = qxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_qxa(qxa = qxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_qxa <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxa * ux_desc[,"wt"])))
est_mean_ut <- estimate_ut(rxx = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], rxx_restricted = FALSE)
est_var_ut <- estimate_var_ut_rxxi(rxxi = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var"])
est_var_e_ut <- estimate_var_ut_rxxi(rxxi = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_e"])
est_var_res_ut <- estimate_var_ut_rxxi(rxxi = rxxa_desc[,"mean"], ux = ux_desc[,"mean"], var_ux = ux_desc[,"var_res"])
est_ut_desc_rxxa <- t(c(mean = est_mean_ut, var = est_var_ut, var_e = est_var_e_ut, var_res = est_var_res_ut, wt = as.numeric(p_qxa * ux_desc[,"wt"])))
est_ut_desc_qxa <- zapsmall((est_ut_desc_qxa + est_ut_desc_rxxa) / 2)
}else{
est_ut_desc_qxa <- filler
}
}else{
est_ut_desc_qxi <- est_ut_desc_qxa <- filler
}
summarize_ad <- function(desc_mat, var_unbiased){
if(nrow(desc_mat) > 0){
c(mean = wt_mean(x = desc_mat[,"mean"], wt = desc_mat[,"wt"]),
var = wt_mean(x = desc_mat[,"var"], wt = desc_mat[,"wt"]) + wt_var(x = desc_mat[,"mean"], wt = desc_mat[,"wt"], unbiased = FALSE),
var_e = wt_mean(x = desc_mat[,"var_e"], wt = desc_mat[,"wt"]),
var_res = wt_mean(x = desc_mat[,"var_res"], wt = desc_mat[,"wt"]) + wt_var(x = desc_mat[,"mean"], wt = desc_mat[,"wt"], unbiased = FALSE))
}else{
NULL
}
}
out <- rbind(qxa_irr = summarize_ad(rbind(qxa_desc, est_qxa_desc_ux_irr, est_qxa_desc_ut_irr), var_unbiased = var_unbiased),
qxa_drr = summarize_ad(rbind(qxa_desc, est_qxa_desc_ux_drr_c, est_qxa_desc_ux_drr_m,
est_qxa_desc_ut_drr_c, est_qxa_desc_ut_drr_m), var_unbiased = var_unbiased),
qxi_irr = summarize_ad(rbind(qxi_desc, est_qxi_desc_ux_irr, est_qxi_desc_ut_irr), var_unbiased = var_unbiased),
qxi_drr = summarize_ad(rbind(qxi_desc, est_qxi_desc_ux_drr_c, est_qxi_desc_ux_drr_m,
est_qxi_desc_ut_drr_c, est_qxi_desc_ut_drr_m), var_unbiased = var_unbiased),
rxxa_irr = summarize_ad(rbind(rxxa_desc, est_rxxa_desc_ux_irr, est_rxxa_desc_ut_irr), var_unbiased = var_unbiased),
rxxa_drr = summarize_ad(rbind(rxxa_desc, est_rxxa_desc_ux_drr_c, est_rxxa_desc_ux_drr_m,
est_rxxa_desc_ut_drr_c, est_rxxa_desc_ut_drr_m), var_unbiased = var_unbiased),
rxxi_irr = summarize_ad(rbind(rxxi_desc, est_rxxi_desc_ux_irr, est_rxxi_desc_ut_irr), var_unbiased = var_unbiased),
rxxi_drr = summarize_ad(rbind(rxxi_desc, est_rxxi_desc_ux_drr_c, est_rxxi_desc_ux_drr_m,
est_rxxi_desc_ut_drr_c, est_rxxi_desc_ut_drr_m), var_unbiased = var_unbiased),
ux = summarize_ad(rbind(ux_desc, est_ux_desc_qxi, est_ux_desc_qxa), var_unbiased = var_unbiased),
ut = summarize_ad(rbind(ut_desc, est_ut_desc_qxi, est_ut_desc_qxa), var_unbiased = var_unbiased))
out[,"var_res"] <- out[,"var"] - out[,"var_e"]
out[,"var_res"][out[,"var_res"] < 0] <- 0
if(is.null(out)){
out <- matrix(0, 0, 4)
colnames(out) <- c("mean", "var", "var_e", "var_res")
}
valid_rxxa_irr <- any(grepl(x = rownames(out), pattern = "qxa_irr"))
valid_rxxa_drr <- any(grepl(x = rownames(out), pattern = "qxa_drr"))
valid_rxxi_irr <- any(grepl(x = rownames(out), pattern = "qxi_irr"))
valid_rxxi_drr <- any(grepl(x = rownames(out), pattern = "qxi_drr"))
valid_ux <- any(grepl(x = rownames(out), pattern = "ux"))
valid_ut <- any(grepl(x = rownames(out), pattern = "ut"))
if(!valid_rxxa_irr) out <- rbind(out, qxa_irr = c(1, 0, 0, 0), rxxa_irr = c(1, 0, 0, 0))
if(!valid_rxxa_drr) out <- rbind(out, qxa_drr = c(1, 0, 0, 0), rxxa_drr = c(1, 0, 0, 0))
if(!valid_rxxi_irr) out <- rbind(out, qxi_irr = c(1, 0, 0, 0), rxxi_irr = c(1, 0, 0, 0))
if(!valid_rxxi_drr) out <- rbind(out, qxi_drr = c(1, 0, 0, 0), rxxi_drr = c(1, 0, 0, 0))
if(!valid_ux) out <- rbind(out, ux = c(1, 0, 0, 0))
if(!valid_ut) out <- rbind(out, ut = c(1, 0, 0, 0))
if(valid_rxxa_irr) if(is.na(out["qxa_irr",1])) valid_rxxa_irr <- FALSE
if(valid_rxxa_drr) if(is.na(out["qxa_drr",1])) valid_rxxa_drr <- FALSE
if(valid_rxxi_irr) if(is.na(out["qxi_irr",1])) valid_rxxi_irr <- FALSE
if(valid_rxxi_drr) if(is.na(out["qxi_drr",1])) valid_rxxi_drr <- FALSE
if(valid_ux) if(is.na(out["ux",1])) valid_ux <- FALSE
if(valid_ut) if(is.na(out["ut",1])) valid_ut <- FALSE
out[is.na(out[,1]),1] <- 1
out[is.na(out[,2]),2] <- 0
out[is.na(out[,3]),3] <- 0
out[is.na(out[,4]),4] <- 0
out <- out[c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut"),]
ad_contents <- c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut")[c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr,
valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)]
if(sum(c(valid_rxxa_irr, valid_rxxa_drr, valid_rxxi_irr, valid_rxxi_drr, valid_ux, valid_ut)) == 0) ad_contents <- "NULL"
.valid_rxxa <- filter_rel(rel_vec = rxxa, wt_vec = wt_rxxa)
.valid_rxxi <- filter_rel(rel_vec = rxxi, wt_vec = wt_rxxi)
.valid_ux <- filter_u(u_vec = ux, wt_vec = wt_ux)
.valid_ut <- filter_u(u_vec = ut, wt_vec = wt_ut)
summary_mat <- cbind(k_obs = c(length(rxxa[.valid_rxxa]), length(rxxa[.valid_rxxa]), length(rxxi[.valid_rxxi]), length(rxxi[.valid_rxxi]),
length(rxxa[.valid_rxxa]), length(rxxa[.valid_rxxa]), length(rxxi[.valid_rxxi]), length(rxxi[.valid_rxxi]),
length(ux[.valid_ux]), length(ut[.valid_ut])),
N_obs = c(sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE),
sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxa[.valid_rxxa], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE), sum(n_rxxi[.valid_rxxi], na.rm = TRUE),
sum(ni_ux[.valid_ux], na.rm = TRUE), sum(ni_ut[.valid_ut], na.rm = TRUE)),
L_dists = c(length(c(mean_qxa, mean_rxxa)), length(c(mean_qxa, mean_rxxa)), length(c(mean_qxi, mean_rxxi)), length(c(mean_qxi, mean_rxxi)),
length(c(mean_qxa, mean_rxxa)), length(c(mean_qxa, mean_rxxa)), length(c(mean_qxi, mean_rxxi)), length(c(mean_qxi, mean_rxxi)),
length(mean_ux), length(mean_ut)),
k_dists = c(sum(c(k_qxa, k_rxxa)), sum(c(k_qxa, k_rxxa)), sum(c(k_qxi, k_rxxi)), sum(c(k_qxi, k_rxxi)),
sum(c(k_qxa, k_rxxa)), sum(c(k_qxa, k_rxxa)), sum(c(k_qxi, k_rxxi)), sum(c(k_qxi, k_rxxi)),
sum(k_ux), sum(k_ut)),
N_dists = c(sum(c(N_qxa, N_rxxa)), sum(c(N_qxa, N_rxxa)), sum(c(N_qxi, N_rxxi)), sum(c(N_qxi, N_rxxi)),
sum(c(N_qxa, N_rxxa)), sum(c(N_qxa, N_rxxa)), sum(c(N_qxi, N_rxxi)), sum(c(N_qxi, N_rxxi)),
sum(Ni_ux), sum(Ni_ut))
)
rownames(summary_mat) <- c("qxa_irr", "qxa_drr", "qxi_irr", "qxi_drr",
"rxxa_irr", "rxxa_drr", "rxxi_irr", "rxxi_drr",
"ux", "ut")
.summary_mat <- summary_mat
if(estimate_rxxa){
summary_mat[c("qxa_irr", "qxa_drr"),] <- .summary_mat[c("qxa_irr", "qxa_drr"),] + .summary_mat[c("qxi_irr", "qxi_drr"),]
summary_mat[c("rxxa_irr", "rxxa_drr"),] <- .summary_mat[c("rxxa_irr", "rxxa_drr"),] + .summary_mat[c("rxxi_irr", "rxxi_drr"),]
}
if(estimate_rxxi){
summary_mat[c("qxi_irr", "qxi_drr"),] <- .summary_mat[c("qxi_irr", "qxi_drr"),] + .summary_mat[c("qxa_irr", "qxa_drr"),]
summary_mat[c("rxxi_irr", "rxxi_drr"),] <- .summary_mat[c("rxxi_irr", "rxxi_drr"),] + .summary_mat[c("rxxa_irr", "rxxa_drr"),]
}
if(estimate_ux) summary_mat["ux",] <- .summary_mat["ux",] + .summary_mat["ut",]
if(estimate_ut) summary_mat["ut",] <- .summary_mat["ut",] + .summary_mat["ux",]
summary_mat <- cbind(k_total = apply(summary_mat[,c("k_obs", "k_dists")], 1, sum, na.rm = TRUE),
N_total = apply(summary_mat[,c("N_obs", "N_dists")], 1, sum, na.rm = TRUE),
summary_mat, out)
summary_mat <- cbind(summary_mat, sd = summary_mat[,"var"]^.5, sd_e = summary_mat[,"var_e"]^.5, sd_res = summary_mat[,"var_res"]^.5,
reliability = summary_mat[,"var_res"] / summary_mat[,"var"])
out <- out[,c("mean", "var", "var_res")]
attributes(out) <- append(attributes(out), list(summary = summary_mat, ad_contents = ad_contents))
out
}
out <- est_summaries(qxi_desc = qxi_desc, qxa_desc = qxa_desc,
rxxi_desc = rxxi_desc, rxxa_desc = rxxa_desc,
qxi_desc_c = qxi_desc_c, qxa_desc_c = qxa_desc_c,
rxxi_desc_c = rxxi_desc_c, rxxa_desc_c = rxxa_desc_c,
qxi_desc_m = qxi_desc_m, qxa_desc_m = qxa_desc_m,
rxxi_desc_m = rxxi_desc_m, rxxa_desc_m = rxxa_desc_m,
ux_desc = ux_desc, ut_desc = ut_desc,
estimate_rxxa = estimate_rxxa, estimate_rxxi = estimate_rxxi,
estimate_ux = estimate_ux, estimate_ut = estimate_ut)
out_raw <- est_summaries(qxi_desc = qxi_desc, qxa_desc = qxa_desc,
rxxi_desc = rxxi_desc, rxxa_desc = rxxa_desc,
qxi_desc_c = qxi_desc_c, qxa_desc_c = qxa_desc_c,
rxxi_desc_c = rxxi_desc_c, rxxa_desc_c = rxxa_desc_c,
qxi_desc_m = qxi_desc_m, qxa_desc_m = qxa_desc_m,
rxxi_desc_m = rxxi_desc_m, rxxa_desc_m = rxxa_desc_m,
ux_desc = ux_desc, ut_desc = ut_desc,
estimate_rxxa = FALSE, estimate_rxxi = FALSE,
estimate_ux = FALSE, estimate_ut = FALSE)
attributes(out) <- append(attributes(out),
list(summary_raw = attributes(out_raw)$summary,
ad_contents_raw = attributes(out_raw)$ad_contents,
inputs = inputs))
class(out) <- c("ad_tsa", "matrix")
out
}
#' Create a tabular array of artifact information summarizing values and weights of values in an interactive artifact distribution
#'
#' This is an internal function that constructs a data frame of artifact estimates (in the Value column) and corresponding weights (in the Weight column), consolidated according to the specified number of digits used in rounding.
#'
#' @param art_vec Vector of artifact values (i.e., u ratios, reliability coefficients, square-root reliabilities).
#' @param wt_vec Vector for weights to assign to individual artifact values.
#' @param decimals Number of decimals to which artifact values should be rounded and consolidated.
#'
#' @return Data frame with two columns: One containing artifact values and the other containing weights associated with artifact values.
#'
#' @import dplyr
#' @examples
#' # .create_ad_int(art_vec = c(.8, .8, .9), wt_vec = c(100, 200, 100), decimals = 2)
#'
#' @keywords internal
.create_ad_int <- function(art_vec, wt_vec = rep(1, length(art_vec)), decimals = Inf){
if(is.null(art_vec) | is.null(wt_vec) | length(art_vec) == 0 | length(wt_vec) == 0){
data.frame(Value = 1, Weight = 1, stringsAsFactors = FALSE)
}else{
if(all(is.na(art_vec))){
data.frame(Value = 1, Weight = 1)
}else{
if(length(art_vec) != length(wt_vec)) stop("Lengths of art_vec and wt_vec differ")
art_tab <- data.frame(Value = round(art_vec, decimals), Weight = wt_vec, stringsAsFactors = FALSE)
art_tab <- as.data.frame(ungroup(art_tab %>% group_by(.data$Value) %>% do(data.frame(Value = .data$Value[1], Weight = sum(.data$Weight), stringsAsFactors = FALSE))), stringsAsFactors = FALSE)
art_tab <- art_tab[!is.na(art_tab[,1]),]
art_tab[,"Weight"] <- art_tab[,"Weight"] / sum(art_tab[,"Weight"])
art_tab
}
}
}
create_ad_unprocessed <- function(rxxi = NULL, n_rxxi = NULL, wt_rxxi = n_rxxi, rxxi_type = rep("alpha", length(rxxi)), k_items_rxxi = rep(NA, length(rxxi)),
mean_qxi = NULL, var_qxi = NULL, k_qxi = NULL, mean_n_qxi = NULL, qxi_dist_type = rep("alpha", length(mean_qxi)), mean_k_items_qxi = rep(NA, length(mean_qxi)),
mean_rxxi = NULL, var_rxxi = NULL, k_rxxi = NULL, mean_n_rxxi = NULL, rxxi_dist_type = rep("alpha", length(mean_rxxi)), mean_k_items_rxxi = rep(NA, length(mean_rxxi)),
rxxa = NULL, n_rxxa = NULL, wt_rxxa = n_rxxa, rxxa_type = rep("alpha", length(rxxa)), k_items_rxxa = rep(NA, length(rxxa)),
mean_qxa = NULL, var_qxa = NULL, k_qxa = NULL, mean_n_qxa = NULL, qxa_dist_type = rep("alpha", length(mean_qxa)), mean_k_items_qxa = rep(NA, length(mean_qxa)),
mean_rxxa = NULL, var_rxxa = NULL, k_rxxa = NULL, mean_n_rxxa = NULL, rxxa_dist_type = rep("alpha", length(mean_rxxa)), mean_k_items_rxxa = rep(NA, length(mean_rxxa)),
ux = NULL, ni_ux = NULL, na_ux = NULL, wt_ux = ni_ux, dep_sds_ux_obs = FALSE,
mean_ux = NULL, var_ux = NULL, k_ux = NULL, mean_ni_ux = NULL, mean_na_ux = NA, dep_sds_ux_spec = FALSE,
ut = NULL, ni_ut = NULL, na_ut = NULL, wt_ut = ni_ut, dep_sds_ut_obs = FALSE,
mean_ut = NULL, var_ut = NULL, k_ut = NULL, mean_ni_ut = NULL, mean_na_ut = NA, dep_sds_ut_spec = FALSE, ...){
if(length(rxxi) > 0){
if(length(n_rxxi) == 0){
n_rxxi <- rep(NA, length(rxxi))
if(length(wt_rxxi) == 0){
wt_rxxi <- rep(1, length(rxxi))
}else{
if(length(wt_rxxi) != length(rxxi))
stop("When wt_rxxi is not NULL, the lengths of rxxi and wt_rxxi must be equal", call. = FALSE)
}
}else{
if(length(n_rxxi) != length(rxxi))
stop("When n_rxxi is not NULL, the lengths of rxxi and n_rxxi must be equal", call. = FALSE)
if(length(wt_rxxi) == 0)
wt_rxxi <- n_rxxi
}
if(length(rxxi_type) == 0){
rxxi_type <- rep("alpha", length(rxxi))
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(rxxi_type) == 1)
rxxi_type <- rep(rxxi_type, length(rxxi))
if(length(rxxi_type) != length(rxxi))
stop("When rxxi_type is not length 1, the lengths of rxxi and rxxi_type must be equal", call. = FALSE)
}
if(length(k_items_rxxi) == 0){
k_items_rxxi <- rep(NA, length(rxxi))
}else{
if(length(k_items_rxxi) == 1)
k_items_rxxi <- rep(k_items_rxxi, length(rxxi))
if(length(k_items_rxxi) != length(rxxi))
stop("When k_items_rxxi is not length 1, the lengths of rxxi and k_items_rxxi must be equal", call. = FALSE)
}
}else{
n_rxxi <- wt_rxxi <- rxxi_type <- k_items_rxxi <- NULL
}
if(length(rxxa) > 0){
if(length(n_rxxa) == 0){
n_rxxa <- rep(NA, length(rxxa))
if(length(wt_rxxa) == 0){
wt_rxxa <- rep(1, length(rxxa))
}else{
if(length(wt_rxxa) != length(rxxa))
stop("When wt_rxxa is not NULL, the lengths of rxxa and wt_rxxa must be equal", call. = FALSE)
}
}else{
if(length(n_rxxa) != length(rxxa))
stop("When n_rxxa is not NULL, the lengths of rxxa and n_rxxa must be equal", call. = FALSE)
if(length(wt_rxxa) == 0)
wt_rxxa <- n_rxxa
}
if(length(rxxa_type) == 0){
rxxa_type <- rep("alpha", length(rxxa))
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(rxxa_type) == 1)
rxxa_type <- rep(rxxa_type, length(rxxa))
if(length(rxxa_type) != length(rxxa))
stop("When rxxa_type is not length 1, the lengths of rxxa and rxxa_type must be equal", call. = FALSE)
}
if(length(k_items_rxxa) == 0){
k_items_rxxa <- rep(NA, length(rxxa))
}else{
if(length(k_items_rxxa) == 1)
k_items_rxxa <- rep(k_items_rxxa, length(rxxa))
if(length(k_items_rxxa) != length(rxxa))
stop("When k_items_rxxa is not length 1, the lengths of rxxa and k_items_rxxa must be equal", call. = FALSE)
}
}else{
n_rxxa <- wt_rxxa <- rxxa_type <- k_items_rxxa <- NULL
}
if(length(ux) > 0){
if(length(ni_ux) == 0){
ni_ux <- rep(NA, length(ux))
if(length(wt_ux) == 0){
wt_ux <- rep(1, length(ux))
}else{
if(length(wt_ux) != length(ux))
stop("When wt_ux is not NULL, the lengths of ux and wt_ux must be equal", call. = FALSE)
}
}else{
if(length(ni_ux) != length(ux))
stop("When ni_ux is not NULL, the lengths of ux and ni_ux must be equal", call. = FALSE)
if(length(wt_ux) == 0)
wt_ux <- ni_ux
}
if(length(na_ux) == 0){
na_ux <- rep(NA, length(ux))
}else{
if(length(na_ux) != length(ux))
stop("When na_ux is not NULL, the lengths of ux and na_ux must be equal", call. = FALSE)
}
if(length(dep_sds_ux_obs) == 0){
dep_sds_ux_obs <- rep(FALSE, length(ux))
}else{
if(length(dep_sds_ux_obs) == 1)
dep_sds_ux_obs <- rep(dep_sds_ux_obs, length(ux))
if(length(dep_sds_ux_obs) != length(ux))
stop("When dep_sds_ux_obs is not length 1, the lengths of ux and dep_sds_ux_obs must be equal", call. = FALSE)
}
}else{
ni_ux <- wt_ux <- na_ux <- dep_sds_ux_obs <- NULL
}
if(length(ut) > 0){
if(length(ni_ut) == 0){
ni_ut <- rep(NA, length(ut))
if(length(wt_ut) == 0){
wt_ut <- rep(1, length(ut))
}else{
if(length(wt_ut) != length(ut))
stop("When wt_ut is not NULL, the lengths of ut and wt_ut must be equal", call. = FALSE)
}
}else{
if(length(ni_ut) != length(ut))
stop("When ni_ut is not NULL, the lengths of ut and ni_ut must be equal", call. = FALSE)
if(length(wt_ut) == 0)
wt_ut <- ni_ut
}
if(length(na_ut) == 0){
na_ut <- rep(NA, length(ut))
}else{
if(length(na_ut) != length(ut))
stop("When na_ut is not NULL, the lengths of ut and na_ut must be equal", call. = FALSE)
}
if(length(dep_sds_ut_obs) == 0){
dep_sds_ut_obs <- rep(FALSE, length(ut))
}else{
if(length(dep_sds_ut_obs) == 1)
dep_sds_ut_obs <- rep(dep_sds_ut_obs, length(ut))
if(length(dep_sds_ut_obs) != length(ut))
stop("When dep_sds_ut_obs is not length 1, the lengths of ut and dep_sds_ut_obs must be equal", call. = FALSE)
}
}else{
ni_ut <- wt_ut <- na_ut <- dep_sds_ut_obs <- NULL
}
list(rxxi = rxxi, n_rxxi = n_rxxi, wt_rxxi = wt_rxxi, rxxi_type = rxxi_type, k_items_rxxi = k_items_rxxi,
mean_qxi = mean_qxi, var_qxi = var_qxi, k_qxi = k_qxi, mean_n_qxi = mean_n_qxi, qxi_dist_type = qxi_dist_type, mean_k_items_qxi = mean_k_items_qxi,
mean_rxxi = mean_rxxi, var_rxxi = var_rxxi, k_rxxi = k_rxxi, mean_n_rxxi = mean_n_rxxi, rxxi_dist_type = rxxi_dist_type, mean_k_items_rxxi = mean_k_items_rxxi,
rxxa = rxxa, n_rxxa = n_rxxa, wt_rxxa = wt_rxxa, rxxa_type = rxxa_type, k_items_rxxa = k_items_rxxa,
mean_qxa = mean_qxa, var_qxa = var_qxa, k_qxa = k_qxa, mean_n_qxa = mean_n_qxa, qxa_dist_type = qxa_dist_type, mean_k_items_qxa = mean_k_items_qxa,
mean_rxxa = mean_rxxa, var_rxxa = var_rxxa, k_rxxa = k_rxxa, mean_n_rxxa = mean_n_rxxa, rxxa_dist_type = rxxa_dist_type, mean_k_items_rxxa = mean_k_items_rxxa,
ux = ux, ni_ux = ni_ux, na_ux = na_ux, wt_ux = wt_ux, dep_sds_ux_obs = dep_sds_ux_obs,
mean_ux = mean_ux, var_ux = var_ux, k_ux = k_ux, mean_ni_ux = mean_ni_ux, mean_na_ux = mean_na_ux, dep_sds_ux_spec = dep_sds_ux_spec,
ut = ut, ni_ut = ni_ut, na_ut = na_ut, wt_ut = wt_ut, dep_sds_ut_obs = dep_sds_ut_obs,
mean_ut = mean_ut, var_ut = var_ut, k_ut = k_ut, mean_ni_ut = mean_ni_ut, mean_na_ut = mean_na_ut, dep_sds_ut_spec = dep_sds_ut_spec,
...)
}
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