tests/testthat/test-PhenoParams.R

In Oshlack/splatter: Simple Simulation of Single-cell RNA Sequencing Data

context("PhenoParams")

if (requireNamespace("phenopath", quietly = TRUE)) {
    params <- newPhenoParams()
}

test_that("constructor is valid", {
    skip_if_not_installed("phenopath")
    expect_true(validObject(params))
})

test_that("printing works", {
    skip_if_not_installed("phenopath")
    expect_output(show(params), "PhenoParams")
})

test_that("nGenes checks work", {
    skip_if_not_installed("phenopath")
    expect_error(
        setParam(params, "nGenes", 1),
        "nGenes cannot be set directly"
    )
    pp <- setParam(params, "n.de", 0)
    total <- getParam(pp, "n.de") + getParam(pp, "n.pst") +
        getParam(pp, "n.pst.beta") + getParam(pp, "n.de.pst.beta")
    expect_equal(getParam(pp, "nGenes"), total)
})