reducedDim-set: Methods for Reduced Dimensions in ExperimentSubset objects

In ExperimentSubset: Manages subsets of data with Bioconductor Experiment objects

Description

A wrapper to the reducedDim<- from reducedDims method with additional support for subsets.

Usage

reducedDim(object, type, subsetName) <- value

Arguments

object	ExperimentSubset Input ExperimentSubset object or any object supported by reducedDim<- from reducedDims method.
type	character(1) Same as type in reducedDim<- from reducedDims method.
subsetName	character(1) Specify the name of the subset to which the reducedDim should be set to. If missing, reducedDim<- from reducedDims method is called on the main object.
value	matrix Value to set to reducedDim.

Value

Updated input object with reducedDim set.

Examples

data(sce_chcl, package = "scds")
es <- ExperimentSubset(sce_chcl)
es <- createSubset(es, "subset1",
rows = c(1:1500), cols = c(1:1500),
parentAssay = "counts")
reducedDim(es, type = "PCA",
subsetName = "subset1") <- scater::calculatePCA(
assay(es, "subset1"))

ExperimentSubset documentation built on Nov. 8, 2020, 5:03 p.m.