RenameAllClusters: Renaming all clusters at once

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

Description

RenameAllClusters function enables renaming all cluster at once.

Usage

RenameAllClusters.SingleCellExperiment(object, new.cluster.names)

## S4 method for signature 'SingleCellExperiment'
RenameAllClusters(object, new.cluster.names = "")

Arguments

object	of SingleCellExperiment class
new.cluster.names	object of class 'iloreg'

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 <- RenameAllClusters(sce,new.cluster.names=LETTERS[seq_len(5)])

ILoReg documentation built on Nov. 8, 2020, 8:20 p.m.