graphlet-clustering

This repo contains code for graphlet-based community detection in Protein-Protein Interaction (PPI) netowrks.

Identification of Disease Modules Using Higher-Order Network Structure, Pramesh Singh, Hannah Kuder, Anna Ritz https://www.biorxiv.org/content/10.1101/2022.12.24.521876v1

Directory Contents

• src: source code.

• data: Interactomes, biological pathway gene sets, disease gene sets, DREAM challenge datasets and scoring tools.

Orca

Our method code uses ORbit Counting Algorithm (ORCA) for computing edge-orbits. To use ORCA run the following commands:

git submodule init
git submodule update
cd src/clustering/orca/
g++ -O2 -std=c++11 -o orca.exe orca.cpp

See the README.md file in orca/ for more info.