skip_on_covr()
skip_if_not_installed("logistf")
data(sex2, package = "logistf")
m1 <- logistf::logistf(case ~ age + oc + vic + vicl + vis + dia, data = sex2)
test_that("model_info", {
expect_true(model_info(m1)$is_binomial)
expect_true(model_info(m1)$is_bernoulli)
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(
"age", "oc", "vic", "vicl", "vis", "dia"
)))
expect_identical(
find_predictors(m1, flatten = TRUE),
c("age", "oc", "vic", "vicl", "vis", "dia")
)
expect_null(find_predictors(m1, effects = "random"))
})
test_that("find_random", {
expect_null(find_random(m1))
})
test_that("get_random", {
expect_warning(get_random(m1))
})
test_that("find_response", {
expect_identical(find_response(m1), "case")
})
test_that("get_response", {
expect_equal(get_response(m1), sex2$case, ignore_attr = TRUE)
})
test_that("get_predictors", {
expect_named(
get_predictors(m1),
c("age", "oc", "vic", "vicl", "vis", "dia")
)
})
test_that("link_inverse", {
expect_equal(link_inverse(m1)(0.2), plogis(0.2), tolerance = 1e-5)
})
test_that("get_data", {
expect_identical(nrow(get_data(m1)), 239L)
expect_identical(
colnames(get_data(m1)),
c("case", "age", "oc", "vic", "vicl", "vis", "dia")
)
})
test_that("find_formula", {
expect_length(find_formula(m1), 1)
expect_equal(
find_formula(m1),
list(conditional = as.formula("case ~ age + oc + vic + vicl + vis + dia")),
ignore_attr = TRUE
)
})
test_that("find_terms", {
expect_identical(find_terms(m1), list(
response = "case",
conditional = c("age", "oc", "vic", "vicl", "vis", "dia")
))
expect_identical(
find_terms(m1, flatten = TRUE),
c("case", "age", "oc", "vic", "vicl", "vis", "dia")
)
})
test_that("n_obs", {
expect_identical(n_obs(m1), 239)
})
test_that("linkfun", {
expect_false(is.null(link_function(m1)))
})
test_that("linkinverse", {
expect_false(is.null(link_inverse(m1)))
})
test_that("find_parameters", {
expect_identical(
find_parameters(m1),
list(
conditional = c("(Intercept)", "age", "oc", "vic", "vicl", "vis", "dia")
)
)
expect_identical(nrow(get_parameters(m1)), 7L)
expect_identical(
get_parameters(m1)$Parameter,
c("(Intercept)", "age", "oc", "vic", "vicl", "vis", "dia")
)
})
test_that("is_multivariate", {
expect_false(is_multivariate(m1))
})
test_that("find_algorithm", {
expect_identical(find_algorithm(m1), list(algorithm = "Penalized ML"))
})
test_that("find_statistic", {
expect_identical(find_statistic(m1), "chi-squared statistic")
})
unloadNamespace("logistf")
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