varianceStabilization: Variance stabilization.

In TimeSeriesExperiment: Analysis for short time-series data

Description

This function performs variance stabilization on assay data.

Usage

varianceStabilization(X, method = "asinh")

Arguments

X	an assay data matrix or data.frame where columns correspond
method	Method for variance stabilization (VST). Currently, supports "none" (no VST), "log1p" (log plus one), "asinh" (inverse hyperbolic sine) or "deseq" (varianceStabilizingTransformation function from DESeq2 package). Default is "log1p".

Value

Returns a varianced stabilized data matrix.

Examples

X <- sapply(exp(rlnorm(10)), function(m) rnbinom(20, size = 1, mu = m))
head(X)
Y <- varianceStabilization(X, method = "asinh")
head(Y)

TimeSeriesExperiment documentation built on Nov. 8, 2020, 11:09 p.m.