graphlayouts
graphlayouts: Layout algorithms for network visualizations in R - Published in JOSS (2023)
graphsim
graphsim: An R package for simulating gene expression data from graph structures of biological pathways - Published in JOSS (2020)
cytoscape.js-cise
An implementation of the circular layout algorithm by Dogrusoz et al. as a Cytoscape.js extension
pytextrank
Python implementation of TextRank algorithms ("textgraphs") for phrase extraction
networkit
NetworKit is a growing open-source toolkit for large-scale network analysis.
kglab
Graph Data Science: an abstraction layer in Python for building knowledge graphs, integrated with popular graph libraries – atop Pandas, NetworkX, RAPIDS, RDFlib, pySHACL, PyVis, morph-kgc, pslpython, pyarrow, etc.
BisPy
BisPy: Bisimulation in Python - Published in JOSS (2021)
AtiyahBott
An implementation of the Atiyah-Bott formula for the moduli space of genus 0 stable maps.
ntpoly
A massively parallel library for computing the functions of sparse matrices.
graphtage
A semantic diff utility and library for tree-like files such as JSON, JSON5, XML, HTML, YAML, and CSV.
phd-dissertation
My "Efficient Materials Informatics between Rockets and Electrons" PhD Dissertation in Materials Science and Engineering, defended on May 20th 2024, concisely spanning 352 pages and 109 figures.
basic-influence-roles
Detect and measure the Basic Influence Role each node plays in a Directed Network.
community-aware-graph-transformer
Community-aware Graph Transformer (CGT) is a novel Graph Transformer model that utilizes community structures to address node degree biases in message-passing mechanism and developed by NS Lab @ CUK based on pure PyTorch backend.
LaplacianOpt
A Julia/JuMP Package for Maximizing Algebraic Connectivity of Undirected Weighted Graphs
MultilayerGraphs.jl
MultilayerGraphs.jl: Multilayer Network Science in Julia - Published in JOSS (2023)
textgraphs
TextGraphs + LLMs + graph ML for entity extraction, linking, ranking, and constructing a lemma graph
cytoscape-layout-utilities
Miscellaneous utilities for placement of nodes or components complementary to a main layout algorithm
matlab-igraph: bringing igraph to MATLAB
matlab-igraph: bringing igraph to MATLAB - Published in JOSS (2025)
global-chem
A Knowledge Graph of Common Chemical Names to their Molecular Definition
signed-local-community
[WebConf 2020] Searching for polarization in signed graphs: a local spectral approach
hypergraphx
HGX is a multi-purpose, open-source Python library for higher-order network analysis
feasible-edge-replacements
Classes and algorithms for recursive amoeba trees and general framework for feasible edge replacements.