bootstraps: Accessor and replacement for bootstrap results in a...

In scater: Single-Cell Analysis Toolkit for Gene Expression Data in R

Description

SingleCellExperiment objects can contain bootstrap expression values (for example, as generated by the kallisto software for quantifying feature abundance). These functions conveniently access and replace the 'bootstrap' elements in the assays slot with the value supplied, which must be an matrix of the correct size, namely the same number of rows and columns as the SingleCellExperiment object as a whole.

Usage

bootstraps(object)

bootstraps(object) <- value

## S4 method for signature 'SingleCellExperiment'
bootstraps(object)

## S4 replacement method for signature 'SingleCellExperiment,array'
bootstraps(object) <- value

Arguments

object	a SingleCellExperiment object.
value	an array of class "numeric" containing bootstrap expression values

Value

If accessing bootstraps slot of an SingleCellExperiment, then an array with the bootstrap values, otherwise an SingleCellExperiment object containing new bootstrap values.

Author(s)

Davis McCarthy

Examples

example_sce <- mockSCE()
bootstraps(example_sce)

scater documentation built on Feb. 28, 2021, 2:01 a.m.