Perform RUV normalization

Usage

normRUV(
  data,
  control.idx = NULL,
  sc.idx = NULL,
  method = c("RUVg", "RUVs", "RUVse"),
  k = 1,
  drop = 0,
  log = TRUE
)

data: A un-normalized count data matrix of shape n x p, where n is the number of samples and p is the number of features.
control.idx: Vector of control genes' id.
sc.idx: A numeric matrix specifying the replicate samples for which to compute the count differences used to estimate the factors of unwanted variation.
method: Perform RUVg or RUVs normalization.
k: The number of factors of unwanted variation to be estimated from the data.
drop: The number of singular values to drop in the estimation of unwanted variation, default drop the first singular value that represent the difference between enrichment and input.
log: Whether to perform log2-transformation with 1 offset on data matrix (default: TRUE), while normalized counts are returned in non-log format.

List containing normalized counts and adjust factors for adjusting unwanted variation.