MergeClusters {ILoReg} | R Documentation

## Merge clusters

### Description

MergeClusters function enables merging clusters and naming the newly formed cluster.

### Usage

    MergeClusters.SingleCellExperiment(object, clusters.to.merge, new.name)

    ## S4 method for signature 'SingleCellExperiment'
    MergeClusters(object, clusters.to.merge = "", new.name = "")

### Arguments

`object` | of `SingleCellExperiment` class
`clusters.to.merge` | a character or numeric vector for the names of the clusters to merge
`new.name` | a character for the new name of the merged cluster. If left empty, the new cluster name is formed by separating the cluster names by "_".

### Value

object of `SingleCellExperiment` class

### Examples

    library(SingleCellExperiment)
    sce <- SingleCellExperiment(assays = list(logcounts = pbmc3k_500))
    sce <- PrepareILoReg(sce)
    ## These settings are just to accelerate the example, use the defaults.
    sce <- RunParallelICP(sce,L=2,threads=1,C=0.1,k=5,r=1)
    sce <- RunPCA(sce,p=5)
    sce <- HierarchicalClustering(sce)
    sce <- SelectKClusters(sce,K=5)
    sce <- MergeClusters(sce,clusters.to.merge=c(1,2),new.name="merged1")

[Package ILoReg version 1.0.0 Index]