root_transformation: Root transformation

In villegar/MetaPipe: A High-Performance Computing Pipeline for QTL Mapping of Large Ionomic and Metabolomic Datasets

Root transformation

Description

Normalise data with a root transformation.

Usage

root_transformation(
  data,
  trait = "DATA",
  alpha = 0.05,
  transf_vals = c(2, exp(1), 3, 4, 5, 6, 7, 8, 9, 10),
  plots_prefix = "HIST",
  digits = 6,
  plot = TRUE,
  quiet = FALSE
)

Arguments

data	Original data.
trait	Trait name.
alpha	Significance level.
transf_vals	Transformation values.
plots_prefix	Prefix for plots with or without path.
digits	Significant digits to compare p-values of transformations.
plot	Boolean flag to indicate whether or not to plot a histogram comparing the original and transformed/normalised data.
quiet	Boolean flag to hide status messages.

Value

Data structure containing the normalised data, original data if no transformation was performed.

See Also

Other Transformation functions: log_transformation(), power_transformation()

Examples

set.seed(123)
data <- rnorm(100, 5)
transformed <- MetaPipe::root_transformation(data ^ 2, "EXP_2")

# Clean up example outputs
MetaPipe:::tidy_up("HIST")

villegar/MetaPipe documentation built on Nov. 22, 2022, 10:44 p.m.