Graph-based based clustering in single-cell RNA-seq

Graph-based clustering is a popular method for clustering single-cell RNA-seq data. It is based on the idea of constructing a graph from the data, where each cell is represented as a node and edges are drawn between nodes that are similar to each other. The graph is then partitioned into clusters using algorithms such as Louvain or Leiden.

Louvain

Leiden

scRNA-seq

Created

Friday, August 14, 2026

Modified

Wednesday, October 14, 2026

Eucliden distances Adjacency matrix

---
title: "Graph-based based clustering in single-cell RNA-seq"
date: "2026-08-14"
published-title: Created
date-modified: last-modified
categories: [Louvain, Leiden, scRNA-seq]
toc-title: "Contents"
description: "Graph-based clustering is a popular method for clustering single-cell RNA-seq data. It is based on the idea of constructing a graph from the data, where each cell is represented as a node and edges are drawn between nodes that are similar to each other. The graph is then partitioned into clusters using algorithms such as Louvain or Leiden."
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Eucliden distances
Adjacency matrix

![](louvain_single_cell_process.gif)