if ( require("PROreg")) {
set.seed(123)
# defining the parameters
k <- 100
m <- 10
phi <- 0.5
beta <- c(1.5, -1.1)
sigma <- 0.5
# simulating the covariate and random effects
x <- runif(k, 0, 10)
X <- model.matrix(~x)
z <- as.factor(rBI(k, 4, 0.5, 2))
Z <- model.matrix(~ z - 1)
u <- rnorm(5, 0, sigma)
# the linear predictor and simulated response variable
eta <- beta[1] + beta[2] * x + crossprod(t(Z), u)
p <- 1 / (1 + exp(-eta))
y <- rBB(k, m, p, phi)
dat <- data.frame(cbind(y, x, z))
dat$z <- as.factor(dat$z)
# apply the model
m1 <- BBmm(
fixed.formula = y ~ x,
random.formula = ~z,
m = m,
data = dat
)
test_that("model_info", {
expect_true(model_info(m1)$is_betabinomial)
expect_true(model_info(m1)$is_binomial)
})
test_that("find_predictors", {
expect_identical(find_predictors(m1), list(conditional = "x"))
expect_identical(find_predictors(m1, effects = "random"), list(random = "z"))
})
test_that("find_random", {
expect_identical(find_random(m1), list(random = "z"))
})
test_that("get_random", {
expect_equal(get_random(m1), dat["z"])
})
test_that("find_response", {
expect_identical(find_response(m1), "y")
})
test_that("get_response", {
expect_equal(get_response(m1), dat$y)
})
test_that("get_predictors", {
expect_equal(colnames(get_predictors(m1)), "x")
})
test_that("link_inverse", {
expect_equal(link_inverse(m1)(0.2), plogis(0.2), tolerance = 1e-3)
})
test_that("get_data", {
expect_equal(nrow(get_data(m1)), 100)
expect_equal(colnames(get_data(m1)), c("y", "x", "z"))
})
test_that("find_formula", {
expect_length(find_formula(m1), 2)
expect_equal(
find_formula(m1),
list(
conditional = as.formula("y ~ x"),
random = as.formula("~z")
)
)
})
test_that("find_variables", {
expect_equal(
find_variables(m1),
list(
response = "y",
conditional = "x",
random = "z"
)
)
expect_equal(find_variables(m1, flatten = TRUE), c("y", "x", "z"))
})
test_that("n_obs", {
expect_equal(n_obs(m1), 100)
})
test_that("find_parameters", {
expect_equal(
find_parameters(m1),
list(
conditional = c("(Intercept)", "x"),
random = "z"
)
)
expect_equal(nrow(get_parameters(m1)), 2)
expect_equal(get_parameters(m1)$Parameter, c("(Intercept)", "x"))
})
test_that("find_terms", {
expect_equal(
find_terms(m1),
list(
response = "y",
conditional = "x",
random = "z"
)
)
})
test_that("find_statistic", {
expect_identical(find_statistic(m1), "t-statistic")
})
}
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