Adjust integer counts with ComBat-seq — adjust_combatseq • bulkMAE

Adjust integer counts with ComBat-seq

Usage

adjust_combatseq(
  x,
  experiment,
  batch,
  assay = "counts",
  group = NULL,
  covariates = NULL,
  ...
)

Arguments

x: A MultiAssayExperiment object.
experiment: Optional experiment name.
batch: Metadata column name or batch vector.
assay: Assay name or one-based assay index.
group: Optional biological group column or vector to preserve.
covariates: Optional formula for additional covariates to preserve.
...: Additional arguments passed to sva::ComBat_seq().

Value

A corrected count matrix.