librarySizeFactors {scater}R Documentation

Compute library size factors

Description

Define size factors from the library sizes after centering. This ensures that the library size adjustment yields values comparable to those generated after normalization with other sets of size factors.

Usage

librarySizeFactors(object, exprs_values = "counts", subset_row = NULL)

Arguments

object

A count matrix or SingleCellExperiment object containing counts.

exprs_values

A string indicating the assay of object containing the counts, if object is a SingleCellExperiment.

subset_row

A vector specifying whether the rows of object should be (effectively) subsetted before calculating library sizes.

Value

A numeric vector of size factors.

Examples

data("sc_example_counts")
summary(librarySizeFactors(sc_example_counts))

[Package scater version 1.10.1 Index]