From: chainsawriot <chainsawtiney@gmail.com>
Date: Tue, 26 Jul 2022 19:52:43 +0000 (+0200)
Subject: Add simulation of listwise deletion and averaging of labeled-only estimators
X-Git-Url: https://code.communitydata.science/ml_measurement_error_public.git/commitdiff_plain/27a3849d5dcddb668970b283f6aac0d7c8fb642e?hp=6b19a3946446e798a3238d096bb33c50eb6dd954

Add simulation of listwise deletion and averaging of labeled-only estimators
---

diff --git a/irr/loco_loa.R b/irr/loco_loa.R
new file mode 100644
index 0000000..f5269d3
--- /dev/null
+++ b/irr/loco_loa.R
@@ -0,0 +1,81 @@
+.emulate_coding <- function(ground_truth, Q = 1) {
+    if (runif(1) > Q) {
+        return(sample(c(0, 1), size = 1, replace = TRUE))
+    } else {
+        return(ground_truth)
+    }
+}
+
+distort_gt <- function(x, Q = NULL) {
+    return(purrr::map_dbl(x, .emulate_coding, Q = Q))
+}
+
+N <- c(1000, 3600, 14400)
+m <- c(75, 150, 300)
+
+B0 <- c(0, 0.1, 0.3)
+Bxy <- c(0.1, 0.2, 0.5)
+
+Q <- c(.6, .8, .9)
+
+conditions <- expand.grid(N, m, B0, Bxy, Q)
+
+colnames(conditions) <- c("N", "m", "B0", "Bxy", "Q")
+
+logistic <- function(x) {1/(1+exp(-1*x))}
+
+.step <- function(i, Bxy, B0, Q, N, m) {
+    x <- rbinom(N, 1, 0.5)
+    y <-  Bxy * x + rnorm(N, 0, .5) + B0
+
+    dx <- as.numeric(distort_gt(x, Q = Q))
+
+    randomidx <- sample(seq(N), m)
+    
+    coder1x <- distort_gt(x[randomidx], Q = Q)
+    coder2x <- distort_gt(x[randomidx], Q = Q)
+    coding_data <- matrix(c(as.numeric(coder1x), as.numeric(coder2x)), nrow = 2, byrow = TRUE)
+    alpha <- irr::kripp.alpha(coding_data, method = "nominal")
+    estimated_q <- alpha$value^(1/2)
+    estimated_q2 <- alpha$value
+    
+    res <- data.frame(x = as.factor(x), y = y, dx = as.factor(dx))
+    small_y <- y[randomidx]
+    small_x <- x[randomidx]
+    naive_mod <- glm(y~dx, data = res, x = TRUE, y = TRUE)
+    real_mod <- glm(y~x, data = res, x = TRUE, y = TRUE)
+    m1 <- glm(small_y~coder1x)
+    m2 <- glm(small_y~coder2x)
+    m3 <- glm(small_y~small_x)
+    correct_only_idx <- coder1x == coder2x
+    m4 <- glm(small_y[correct_only_idx] ~ small_x[correct_only_idx])
+    lab_only_gt <- coef(m3)[2]
+    lab_only_avg <- mean(coef(m1)[2], coef(m2)[2])
+    lab_only_correct_only <- coef(m4)[2]    
+    return(tibble::tibble(N, m, Q, Bxy, B0, estimated_q, naive_Bxy = as.numeric(coef(naive_mod)[2]), real_Bxy = as.numeric(coef(real_mod)[2]), lab_only_gt= lab_only_gt, lab_only_avg = lab_only_avg, lab_only_correct_only = lab_only_correct_only))
+}
+
+## res <- list()
+
+## for (i in seq(nrow(conditions))) {
+##     message(i)
+##     res[[i]] <- purrr::map_dfr(1:100, ~.step(., conditions$Bxy[i], conditions$B0[i], conditions$Q[i], conditions$N[i], conditions$m[i]))
+## }
+
+require(furrr)
+plan(multisession)
+
+.run <- function(i, conditions) {
+    purrr::map_dfr(1:100, ~.step(., conditions$Bxy[i], conditions$B0[i], conditions$Q[i], conditions$N[i], conditions$m[i]))
+}
+
+res <- future_map(seq(nrow(conditions)), .run, conditions = conditions, .progress = TRUE)
+
+##saveRDS(res, "rubin_res.RDS")
+
+conditions <- tibble::as_tibble(conditions)
+conditions$res <- res
+
+require(tidyverse)
+
+conditions %>% mutate(loco_median = purrr::map_dbl(res, ~median(.$lab_only_correct_only)), loco_p025 = purrr::map_dbl(res, ~quantile(.$lab_only_correct_only, probs = 0.025)), loco_p975 = purrr::map_dbl(res, ~quantile(.$lab_only_correct_only, probs = 0.975))) %>% mutate(loa_median = purrr::map_dbl(res, ~median(.$lab_only_avg)), loa_p025 = purrr::map_dbl(res, ~quantile(.$lab_only_avg, probs = 0.025)), loa_p975 = purrr::map_dbl(res, ~quantile(.$lab_only_avg, probs = 0.975))) %>% filter(B0 == 0.1 & Bxy == 0.5) %>% select(N, m, Q, starts_with("loco"), starts_with("loa")) %>% pivot_longer(cols = loco_median:loa_p975, names_to = c("type", "tile"),names_pattern = "(.*)_(.*)", values_to = "value") %>% pivot_wider(names_from = "tile") %>% ggplot(aes(x = Q, y = median, ymin = p025, ymax = p975, fill = type, col = type))  + geom_line() + geom_ribbon(alpha = 0.2) + facet_grid(N~m) + geom_hline(yintercept = .5, linetype = 2, col = "grey")