Open Source Tools and Resources

Drugst.One Network-based drug repurposing platform

Network visualization plugin that integrates gene/protein interactions with drug candidate ranking algorithms for therapeutic discovery.

iCell Network-based integration of multi-omics data

Integrative framework for fusing multi-omics data through network topology

Simplets Simple graphlets for biological network analysis

Efficient computation and analysis of small network motifs

Hyper-graphlets Hypergraph analysis using graphlet-based methods

Extension of graphlets to hypergraphs for analyzing higher-order interactions

GraphCrunch 2 Comprehensive network analysis and modeling platform

Software tool for large-scale network modeling, alignment, and clustering

GraphCrunch Original graphlet-based network analysis tool

The original tool for analyzing biological networks using graphlets

GCD, RGF & GDDA Alignment-free comparison of undirected networks

Graphlet-based methods for comparing network topology without alignment

DGCD, DRGF & DGDDA Alignment-free comparison of directed networks

Extended graphlet methods for comparing directed biological networks

Ulign Unified network alignment tool for biological networks

Advanced network alignment method for comparing protein-protein interaction networks

Fuse Multiple network alignment via data fusion

Data fusion approach for aligning multiple biological networks simultaneously

L-GRAAL Lagrangian graphlet-based network aligner

Fast network alignment using graphlet degree similarity and Lagrangian optimization

C-GRAAL Common-neighbors-based global graph alignment

Global network alignment using common neighbor topology

MI-GRAAL Multi-level integrative GRAAL network aligner

Integrative approach combining multiple topological and biological information sources

GRAAL Graph aligner - the original graphlet-based network alignment method

The foundational graphlet-based global network alignment algorithm

GR-Align Graphlet-based alignment of protein 3D structures

Fast and flexible protein structure alignment using graphlet degree similarity