DefaultAssay: Get and set the default assay

In lambdamoses/SeuratBasics: Slimmed down version of Seurat

Description

Get and set the default assay

Usage

DefaultAssay(object, ...)

DefaultAssay(object, ...) <- value

## S3 method for class 'Assay'
DefaultAssay(object, ...)

## S3 method for class 'DimReduc'
DefaultAssay(object, ...)

## S3 method for class 'Graph'
DefaultAssay(object, ...)

## S3 method for class 'Seurat'
DefaultAssay(object, ...)

## S3 method for class 'SeuratCommand'
DefaultAssay(object, ...)

## S3 replacement method for class '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

# 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)

lambdamoses/SeuratBasics documentation built on May 6, 2020, 9:32 a.m.