Idents: Extract or set default identities from object

In samuel-marsh/scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing

Extract or set default identities from object

Description

Extract default identities from object in factor form.

Usage

## S3 method for class 'liger'
Idents(object, ...)

## S3 replacement method for class 'liger'
Idents(object, ...) <- value

Arguments

object	LIGER object name.
...	Arguments passed to other methods
value	name of column in cellMeta slot to set as new default cluster/ident

Value

factor

object

Note

Use of Idents<- is only for setting new default ident/cluster from column already present in cellMeta. To add new column with new cluster values to cellMeta and set as default see Rename_Clusters.

Examples

## Not run: 
# Extract idents
object_idents <- Idents(object = liger_object)

## End(Not run)

## Not run: 
# Set idents
Idents(object = liger_object) <- "new_annotation"

## End(Not run)

samuel-marsh/scCustomize documentation built on Dec. 20, 2024, 7:41 a.m.