calculateClustersSimilarity,scRNAseq-method {conclus} | R Documentation

## calculateClustersSimilarity

### Description

Having computed cells similarity, pools information into clusters.

### Usage

    calculateClustersSimilarity(theObject, clusteringMethod = "ward.D2")

### Arguments

`theObject` | An Object of class scRNASeq for which the count matrix was normalized (see ?normaliseCountMatrix), tSNE were calculated (see ?generateTSNECoordinates), dbScan was run (see ?runDBSCAN), and cells were clustered (see ?clusterCellsInternal).
`clusteringMethod` | Clustering method passed to hclust() function. See ?hclust for a list of method. Default = "ward.D2".

### Value

An object of class scRNASeq with its clustersSimilarityMatrix and clustersSimiliratyOrdered slots updated.

### Author(s)

Ilyess RACHEDI, based on code by Polina PAVLOVICH and Nicolas DESCOSTES.

### See Also

plotClustersSimilarity

### Examples

    ## Object scr containing the results of previous steps
    load(system.file("extdata/scrFull.Rdat", package="conclus"))
    ## Calculate clusters similarity
    scr <- calculateClustersSimilarity(scr)

[Package conclus version 1.0.0 Index]