skip_if_not_installed("multgee")
data(arthritis, package = "multgee")
m1 <- multgee::ordLORgee(
y ~ factor(time) + factor(trt) + factor(baseline),
data = arthritis,
id = id,
LORstr = "uniform",
repeated = time
)
test_that("model_info", {
expect_true(model_info(m1)$is_ordinal)
expect_false(model_info(m1)$is_multinomial)
expect_true(model_info(m1)$is_logit)
expect_false(model_info(m1)$is_linear)
})
test_that("find_predictors", {
expect_identical(find_predictors(m1), list(conditional = c("time", "trt", "baseline")))
expect_identical(
find_predictors(m1, flatten = TRUE),
c("time", "trt", "baseline")
)
expect_identical(find_predictors(m1, effects = "random"), list(random = "id"))
expect_identical(
find_predictors(m1, effects = "all", flatten = TRUE),
c("time", "trt", "baseline", "id")
)
})
test_that("find_response", {
expect_identical(find_response(m1), "y")
})
test_that("get_response", {
expect_equal(get_response(m1), na.omit(arthritis)$y, ignore_attr = TRUE)
})
test_that("find_random", {
expect_identical(find_random(m1), list(random = "id"))
})
test_that("get_random", {
expect_equal(get_random(m1), arthritis[!is.na(arthritis$y), "id", drop = FALSE], ignore_attr = TRUE)
})
test_that("get_predictors", {
expect_equal(
get_predictors(m1),
na.omit(arthritis)[, c("time", "trt", "baseline"), drop = FALSE],
ignore_attr = TRUE
)
})
test_that("link_inverse", {
expect_equal(link_inverse(m1)(0.2), plogis(0.2), tolerance = 1e-5)
})
test_that("get_data", {
expect_identical(nrow(get_data(m1)), 888L)
expect_identical(
colnames(get_data(m1)),
c("y", "time", "trt", "baseline", "id")
)
})
test_that("find_formula", {
expect_length(find_formula(m1), 2)
expect_equal(
find_formula(m1),
list(
conditional = as.formula("y ~ factor(time) + factor(trt) + factor(baseline)"),
random = as.formula("~id")
),
ignore_attr = TRUE
)
})
test_that("find_terms", {
expect_length(find_terms(m1), 3)
expect_identical(
find_terms(m1),
list(
response = "y",
conditional = c("factor(time)", "factor(trt)", "factor(baseline)"),
random = "id"
)
)
})
test_that("find_variables", {
expect_identical(
find_variables(m1),
list(
response = "y",
conditional = c("time", "trt", "baseline"),
random = "id"
)
)
expect_identical(
find_variables(m1, flatten = TRUE),
c("y", "time", "trt", "baseline", "id")
)
})
test_that("n_obs", {
expect_identical(n_obs(m1), 888L)
})
test_that("linkfun", {
expect_false(is.null(link_function(m1)))
})
test_that("find_parameters", {
expect_identical(
find_parameters(m1),
list(
conditional = c(
"beta10",
"beta20",
"beta30",
"beta40",
"factor(time)3",
"factor(time)5",
"factor(trt)2",
"factor(baseline)2",
"factor(baseline)3",
"factor(baseline)4",
"factor(baseline)5"
)
)
)
expect_identical(nrow(get_parameters(m1)), 11L)
expect_identical(
get_parameters(m1)$Parameter,
c(
"beta10",
"beta20",
"beta30",
"beta40",
"factor(time)3",
"factor(time)5",
"factor(trt)2",
"factor(baseline)2",
"factor(baseline)3",
"factor(baseline)4",
"factor(baseline)5"
)
)
})
test_that("is_multivariate", {
expect_false(is_multivariate(m1))
})
test_that("find_algorithm", {
expect_identical(find_algorithm(m1), list(algorithm = "Fisher's scoring ML"))
})
test_that("find_statistic", {
expect_identical(find_statistic(m1), "z-statistic")
})
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