Seurat (version 3.1.4)

DefaultAssay: Get and set the default assay

Description

Get and set the default assay

Usage

DefaultAssay(object, ...)
DefaultAssay(object, ...) <- value
# S3 method for Assay
DefaultAssay(object, ...)
# S3 method for DimReduc
DefaultAssay(object, ...)
# S3 method for Graph
DefaultAssay(object, ...)
# S3 method for Seurat
DefaultAssay(object, ...)
# S3 method for SeuratCommand
DefaultAssay(object, ...)
# S3 method for Seurat
DefaultAssay(object, ...) <- value

Arguments

object

An object

...

Arguments passed to other methods

value

Name of assay to set as default

Value

The name of the default assay

An object with the new default assay

Examples

# NOT RUN {
# Get current default assay
DefaultAssay(object = pbmc_small)

# Create dummy new assay to demo switching default assays
new.assay <- pbmc_small[["RNA"]]
Key(object = new.assay) <- "RNA2_"
pbmc_small[["RNA2"]] <- new.assay
# switch default assay to RNA2
DefaultAssay(object = pbmc_small) <- "RNA2"
DefaultAssay(object = pbmc_small)

# }