Correct for experimental/bioinformatic dropout of labeled RNA.

Correct for experimental/bioinformatic dropout of labeled RNA.

Usage

CorrectDropout(
  obj,
  grouping_factors = NULL,
  features = NULL,
  exactMatch = TRUE
)

Arguments

obj

An EZbakRFractions object, which is an EZbakRData object on which you have run EstimateFractions().

grouping_factors

Which sample-detail columns in the metadf should be used to group -s4U samples by for calculating the average -s4U RPM? The default value of NULL will cause all sample-detail columns to be used.

features

Character vector of the set of features you want to stratify reads by and estimate proportions of each RNA population. The default of NULL will expect there to be only one fractions table in the EZbakRFractions object.

exactMatch

If TRUE, then features must exactly match the features metadata for a given fractions table for it to be used. Means that you cannot specify a subset of features by default. Set this to FALSE if you would like to specify a feature subset.