Fit a DESeq2 differential-expression model — de_deseq2 • bulkMAE

Fit a DESeq2 differential-expression model

Usage

de_deseq2(
  x,
  experiment,
  design,
  assay = "counts",
  test = c("Wald", "LRT"),
  reduced = NULL,
  ...
)

Arguments

x: A MultiAssayExperiment object.
experiment: Optional experiment name.
design: DESeq2 design formula.
assay: Assay name or one-based assay index.
test: Wald or likelihood-ratio test.
reduced: Reduced formula required for a likelihood-ratio test.
...: Additional arguments passed to DESeq2::DESeq().

Value

A fitted native DESeqDataSet.