RenameCluster: Renaming one cluster

In elolab/iloreg: ILoReg: a tool for high-resolution cell population identification from scRNA-Seq data

Renaming one cluster

Description

RenameCluster function enables renaming a cluster in 'clustering.manual' slot.

Usage

RenameCluster.SingleCellExperiment(object, old.cluster.name, new.cluster.name)

## S4 method for signature 'SingleCellExperiment'
RenameCluster(object, old.cluster.name = "", new.cluster.name = "")

Arguments

object	of SingleCellExperiment class
old.cluster.name	a character variable denoting the old name of the cluster
new.cluster.name	a character variable the new name of the cluster

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 <- RenameCluster(sce,1,"cluster1")

elolab/iloreg documentation built on March 27, 2022, 4:19 a.m.