transform: Transform observation variables.

In CellProfiler/cytominer: Methods for Image-Based Cell Profiling

Transform observation variables.

Description

transform transforms observation variables based on the specified transformation method.

Usage

transform(population, variables, operation = "generalized_log", ...)

Arguments

population	tbl with grouping (metadata) and observation variables.
variables	character vector specifying observation variables.
operation	optional character string specifying method for transform. This must be one of the strings "generalized_log" (default), "spherize", or "sparse_random_projection".
...	arguments passed to transformation operation.

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),
  Intensity_RNA = c(1, 12, -1, 4),
  Intensity_AGP = c(-2, 5, -5, -2),
  Intensity_Mito = c(-1, 15, 5, 22),
  Intensity_ER = c(-12, 15, -25, 24)
)
variables <- c("Intensity_DNA", "Intensity_RNA", "Intensity_AGP", "Intensity_ER")
transform(population, variables, operation = "generalized_log")
transform(population, variables, sample = population, operation = "husk", remove_outliers = FALSE)
transform(population, variables, sample = population, operation = "spherize")
transform(population, variables, n_components = 2, operation = "sparse_random_projection")

CellProfiler/cytominer documentation built on July 2, 2023, 6:19 p.m.