tests/testthat/test_methods.R

In DESeq2: Differential gene expression analysis based on the negative binomial distribution

context("methods")
test_that("methods throw errors", {
  coldata <- DataFrame(x=factor(c("A","A","B","B")))
  counts <- matrix(1:16, ncol=4)
  dds <- DESeqDataSetFromMatrix(counts, coldata, ~ x)
  expect_warning(counts(dds, replace=TRUE))
  expect_error(counts(dds, normalized=TRUE))
  expect_error(sizeFactors(dds) <- c(-1, -1, -1, -1))
  expect_error(normalizationFactors(dds) <- matrix(-1, ncol=4, nrow=4))
  expect_error(estimateDispersions(dds))
})