module_quality_scores-ClusterSet-method: Compute Gene Module Quality Scores

In dputhier/scigenex: The scigenex package (Single-Cell Informative GENe Explorer)

Compute Gene Module Quality Scores

Description

This function computes various quality metrics (connectivity, dunn index and silhouette coefficient) for gene modules in a ClusterSet object.

Usage

## S4 method for signature 'ClusterSet'
module_quality_scores(object)

Arguments

object

a ClusterSet object.

Value

A data frame containing the following cluster quality scores:

• connectivity: Connectivity score.

• dunn_index: Dunn index.

• silhouette_coefficient: Mean silhouette coefficient.

Examples

# Load your data object
load_example_dataset('7871581/files/pbmc3k_medium_clusters')
# Compute quality scores of gene modules
quality_scores <- module_quality_scores(pbmc3k_medium_clusters)
quality_scores

dputhier/scigenex documentation built on May 31, 2024, 8:59 a.m.