normalize_RPKM: Normalize RNASeq count data

In pbastide/phylolimma: Phylogenetic Comparative Methods for limma

Normalize RNASeq count data

Description

Apply RPKM length normalization.

Usage

normalize_RPKM(
  countMatrix,
  lengthMatrix,
  normalisationFactor,
  dataTransformation
)

Arguments

countMatrix	The RNASeq count matrix. Rows and columns should be named.
lengthMatrix	The associated length matrix. Should have the same dimensions as countMatrix, with the same names.
normalisationFactor	Normalization factors to scale the raw library sizes, as computed e.g. by calcNormFactors.
dataTransformation	one of "log2", "asin(sqrt)" or "sqrt." See details.

Value

A matrix of normalized count, with the same dimensions as countMatrix.

pbastide/phylolimma documentation built on Nov. 17, 2024, 1:34 p.m.