whiten: Whiten data.

In cytominer: Methods for Image-Based Cell Profiling

Description

whiten transforms specified observation variables by estimating a whitening transformation on a sample and applying it to the population.

Usage

whiten(population, variables, sample, regularization_param = 1)

Arguments

population	tbl with grouping (metadata) and observation variables.
variables	character vector specifying observation variables.
sample	tbl containing sample that is used by the method to estimate whitening parameters. sample has same structure as population. Typically, sample corresponds to controls in the experiment.
regularization_param	optional parameter used in whitening to offset eigenvalues to avoid division by zero.

Value

transformed data of the same class as population.

Examples

population <- tibble::tibble(
  Metadata_Well = c("A01", "A02", "B01", "B02"),
  Intensity_DNA = c(8, 20, 12, 32),
  Texture_DNA = c(5, 2, 43, 13)
)
variables <- c("Intensity_DNA", "Texture_DNA")
whiten(population, variables, population, 0.01)

cytominer documentation built on July 8, 2020, 5:08 p.m.