Nothing
test_that("get_extreme.logquad()", {
data <- dreamer_data_linear(n_cohorts = c(10, 20, 30), c(1, 3, 5), 1, 2, 2)
mcmc <- dreamer_mcmc(
data,
mod = model_logquad(
mu_b1 = 0,
sigma_b1 = 1,
mu_b2 = 0,
sigma_b2 = 1,
mu_b3 = 0,
sigma_b3 = 1,
shape = 1,
rate = .01
),
n_iter = 4,
n_chains = 1,
silent = TRUE,
convergence_warn = FALSE
)
lower <- min(attr(mcmc, "doses"))
upper <- max(attr(mcmc, "doses"))
b1 <- 1:4
b2 <- log(c(1 / 2.25, 1 / 2.5, 3, 4))
b3 <- c(.5, .5, - .5, - .5)
mcmc <- mcmc %>%
replace_mcmc("mod", "b1", b1) %>%
replace_mcmc("mod", "b2", b2) %>%
replace_mcmc("mod", "b3", b3)
obs <- get_extreme(
mcmc$mod,
time = NULL,
greater = TRUE,
lower = lower,
upper = upper,
index = NULL
)
exp <- tibble::tibble(doses = c(5, 5, 2, 3)) %>%
dplyr::mutate(
extreme_responses = b1 + b2 * log(doses + 1) + b3 * log(doses + 1) ^ 2,
greater = TRUE
)
expect_equal(obs, exp)
obs <- get_extreme(
mcmc$mod,
time = NULL,
greater = FALSE,
lower = lower,
upper = upper,
index = NULL
)
exp <- tibble::tibble(doses = c(1.25, 1.5, 5, 1)) %>%
dplyr::mutate(
extreme_responses = b1 + b2 * log(doses + 1) + b3 * log(doses + 1) ^ 2,
greater = FALSE
)
expect_equal(obs, exp)
obs <- get_extreme(
mcmc$mod,
time = NULL,
greater = FALSE,
lower = lower,
upper = upper,
index = 2
)
exp <- tibble::tibble(doses = c(1.25, 1.5, 5, 1)) %>%
dplyr::mutate(
extreme_responses = b1 + b2 * log(doses + 1) + b3 * log(doses + 1) ^ 2,
greater = FALSE
) %>%
dplyr::slice(2)
expect_equal(obs, exp)
})
test_that("get_extreme.logquad() longitudinal", {
times <- c(0, 10)
t_max <- max(times)
data <- dreamer_data_linear(
n_cohorts = c(10, 25, 30),
dose = c(0, 2, 4),
b1 = .5,
b2 = 3,
sigma = .5,
longitudinal = "linear",
a = .5,
times = times,
t_max = t_max
)
mcmc <- dreamer_mcmc(
data = data,
n_iter = 4,
n_chains = 1,
convergence_warn = FALSE,
silent = TRUE,
mod = model_logquad(
mu_b1 = 0,
sigma_b1 = 1,
mu_b2 = 0,
sigma_b2 = 1,
mu_b3 = 0,
sigma_b3 = 1,
shape = 1,
rate = .01,
longitudinal = model_longitudinal_linear(0, 1, t_max)
)
)
a <- c(.1, .2, .3, .4)
b1 <- 1:4
b2 <- log(c(1 / 2.25, 1 / 2.5, 3, 4))
b3 <- c(.5, .5, - .5, - .5)
mcmc <- mcmc %>%
replace_mcmc("mod", "a", a) %>%
replace_mcmc("mod", "b1", b1) %>%
replace_mcmc("mod", "b2", b2) %>%
replace_mcmc("mod", "b3", b3)
lower <- min(attr(mcmc, "doses"))
upper <- max(attr(mcmc, "doses"))
time <- 3
obs <- get_extreme(
mcmc$mod,
time = time,
greater = TRUE,
lower = lower,
upper = upper,
index = NULL
)
exp <- tibble::tibble(doses = c(0, 0, 2, 3)) %>%
dplyr::mutate(
extreme_responses =
a + (b1 + b2 * log(doses + 1) + b3 * log(doses + 1) ^ 2) * time / t_max,
greater = TRUE
)
expect_equal(obs, exp)
obs <- get_extreme(
mcmc$mod,
time = time,
greater = FALSE,
lower = lower,
upper = upper,
index = NULL
)
exp <- tibble::tibble(doses = c(1.25, 1.5, 0, 0)) %>%
dplyr::mutate(
extreme_responses =
a + (b1 + b2 * log(doses + 1) + b3 * log(doses + 1) ^ 2) * time / t_max,
greater = FALSE
)
expect_equal(obs, exp)
obs <- get_extreme(
mcmc$mod,
time = time,
greater = FALSE,
lower = lower,
upper = upper,
index = 2
)
exp <- tibble::tibble(doses = c(1.25, 1.5, 0, 0)) %>%
dplyr::mutate(
extreme_responses =
a + (b1 + b2 * log(doses + 1) + b3 * log(doses + 1) ^ 2) * time / t_max,
greater = FALSE
) %>%
dplyr::slice(2)
expect_equal(obs, exp)
})
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