Nothing
context("2_backbone")
module_info <- tibble(
module_id = c("A", "B"),
basal = c(0.2, 0.8),
burn = c(TRUE, FALSE),
independence = c(0.4, 0.5)
)
module_network <- tibble(
from = c("A", "A"),
to = c("A", "B"),
effect = c(-1L, 1L),
strength = c(10, 1),
hill = c(2, 3)
)
expression_patterns <- tibble(
from = c("burn", "start"),
to = c("start", "end"),
module_progression = c("+A", "+B"),
start = c(TRUE, FALSE),
burn = c(TRUE, FALSE),
time = c(1, 1)
)
test_that("Testing normal use case of backbone creation", {
backbone <- backbone(
module_info = module_info,
module_network = module_network,
expression_patterns = expression_patterns
)
expect_is(backbone, "list")
expect_named(backbone, c("module_info", "module_network", "expression_patterns"))
expect_is(backbone$module_info, "data.frame")
expect_named(backbone$module_info, c("module_id", "basal", "burn", "independence", "color"))
expect_equal(backbone$module_info$module_id, c("A", "B"))
expect_equal(backbone$module_info$basal, c(.2, .8))
expect_equal(backbone$module_info$burn, c(TRUE, FALSE))
expect_equal(backbone$module_info$independence, c(.4, .5))
expect_is(backbone$module_info$color, "character")
expect_is(backbone$module_network, "data.frame")
expect_equal(backbone$module_network$from, c("A", "A"))
expect_equal(backbone$module_network$to, c("A", "B"))
expect_equal(backbone$module_network$effect, c(-1L, 1L))
expect_equal(backbone$module_network$strength, c(10, 1))
expect_equal(backbone$module_network$hill, c(2, 3))
expect_is(backbone$expression_patterns, "data.frame")
expect_equal(backbone$expression_patterns$from, c("burn", "start"))
expect_equal(backbone$expression_patterns$to, c("start", "end"))
expect_equal(backbone$expression_patterns$module_progression, c("+A,+B", "+B"))
expect_equal(backbone$expression_patterns$start, c(TRUE, FALSE))
expect_equal(backbone$expression_patterns$burn, c(TRUE, FALSE))
expect_equal(backbone$expression_patterns$time, c(1, 1))
})
# test_that("Test error messages", {
# backbone <- backbone(
# module_info = module_info,
# module_network = module_network,
# expression_patterns = expression_patterns
# )
#
# # expect_is(backbone, "list")
# # expect_named(backbone, c("module_info", "module_network", "expression_patterns"))
# #
# # expect_is(backbone$module_info, "data.frame")
# # expect_named(backbone$module_info, c("module_id", "basal", "burn", "independence", "color"))
# # expect_equal(backbone$module_info$module_id, c("A", "B"))
# # expect_equal(backbone$module_info$basal, c(.2, .8))
# # expect_equal(backbone$module_info$burn, c(TRUE, FALSE))
# # expect_equal(backbone$module_info$independence, c(.4, .5))
# # expect_is(backbone$module_info$color, "character")
# #
# # expect_is(backbone$module_network, "data.frame")
# # expect_equal(backbone$module_network$from, c("A", "A"))
# # expect_equal(backbone$module_network$to, c("A", "B"))
# # expect_equal(backbone$module_network$effect, c(-1L, 1L))
# # expect_equal(backbone$module_network$strength, c(10, 1))
# # expect_equal(backbone$module_network$hill, c(2, 3))
# #
# # expect_is(backbone$expression_patterns, "data.frame")
# # expect_equal(backbone$expression_patterns$from, c("burn", "start"))
# # expect_equal(backbone$expression_patterns$to, c("start", "end"))
# # expect_equal(backbone$expression_patterns$module_progression, c("+A,+B", "+B"))
# # expect_equal(backbone$expression_patterns$start, c(TRUE, FALSE))
# # expect_equal(backbone$expression_patterns$burn, c(TRUE, FALSE))
# # expect_equal(backbone$expression_patterns$time, c(1, 1))
# })
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