tests/testthat/test_localLoss.R

In BEclear: Correction of batch effects in DNA methylation data

testthat::context("Testing the local loss")

testthat::test_that("quadratic error matrix, only integer values given", {
  res1 <- localLoss(
    L = matrix(c(1, 2)), R = t(matrix(c(3, 4))),
    error_matrix = matrix(c(1, 1, 1, 1), nrow = 2),
    is = c(1, 2, 1, 2), js = c(1, 1, 2, 2)
  )

  testthat::expect_equal(res1$dL, matrix(c(7, 7)), tolerance = .01)
  testthat::expect_equal(res1$dR, t(matrix(c(3, 3))), tolerance = .01)
})

testthat::test_that("quadratic error matrix, only integer values given, r =3", {
  res1 <- localLoss(
    L = matrix(c(1, 2, 5, 9, 1, 4), ncol = 3), R = t(matrix(c(3, 4, 9, 2, 6, 7), ncol = 3)),
    error_matrix = matrix(c(1, 17, 2, 41), nrow = 2),
    is = c(1, 2, 1, 2), js = c(1, 1, 2, 2)
  )

  testthat::expect_equal(res1$dL, matrix(c(11, 215, 13, 235, 20, 389), ncol = 3), tolerance = .01)
  testthat::expect_equal(res1$dR, t(matrix(c(35, 84, 158, 379, 69, 166), ncol = 3)), tolerance = .01)
})

testthat::test_that("long error matrix, only integer values given", {
  res1 <- localLoss(
    L = matrix(c(5, 6)), R = t(matrix(c(7, 4, 8))),
    error_matrix = matrix(c(7, 5, 3, 1, 3, 4), nrow = 2),
    is = c(1, 2, 1, 2, 1, 2), js = c(1, 1, 2, 2, 3, 3)
  )

  testthat::expect_equal(res1$dL, matrix(c(85, 71)), tolerance = .01)
  testthat::expect_equal(res1$dR, t(matrix(c(65, 21, 39))), tolerance = .01)
})

testthat::test_that("wide error matrix, only integer values given", {
  res1 <- localLoss(
    L = matrix(c(5, 1, 2)), R = t(matrix(c(3, 3))),
    error_matrix = matrix(c(5, 6, 10, 11, 3, 1), nrow = 3),
    is = c(1, 2, 3, 1, 2, 3), js = c(1, 1, 1, 2, 2, 2)
  )

  testthat::expect_equal(res1$dL, matrix(c(48, 27, 33)), tolerance = .01)
  testthat::expect_equal(res1$dR, t(matrix(c(51, 60))), tolerance = .01)
})