sc3_calc_consens {SC3} | R Documentation

## Calculate consensus matrix.

### Description

This function calculates consensus matrices based on the clustering solutions contained in the `kmeans` item of the `sc3` slot of the `metadata(object)`. It then creates and populates the `consensus` item of the `sc3` slot with consensus matrices, their hierarchical clusterings in `hclust` objects, and Silhouette indeces of the clusters. It also removes the previously calculated `kmeans` clusterings from the `sc3` slot, as they are not needed for further analysis.

### Usage

    sc3_calc_consens.SingleCellExperiment(object)

    ## S4 method for signature 'SingleCellExperiment'
    sc3_calc_consens(object)

### Arguments

`object` | an object of `SingleCellExperiment` class

### Details

Additionally, it also adds new columns to the `colData` slot of the input `object`. The column names correspond to the consensus cell labels and have the following format: `sc3_k_clusters`, where `k` is the number of clusters.

### Value

an object of `SingleCellExperiment` class

[Package SC3 version 1.16.0 Index]