Scientific Software
Updated 10 months ago

graphlayouts — Peer-reviewed • Rank 19.0 • Science 100%

graphlayouts: Layout algorithms for network visualizations in R - Published in JOSS (2023)

Scientific Software · Peer-reviewed
Scientific Software
Updated 10 months ago

graphsim — Peer-reviewed • Rank 14.3 • Science 98%

graphsim: An R package for simulating gene expression data from graph structures of biological pathways - Published in JOSS (2020)

Updated 10 months ago

cytoscape-fcose • Rank 27.5 • Science 75%

fCoSE: a fast Compound Spring Embedder

Scientific Software
Updated 10 months ago

graphenv — Peer-reviewed • Rank 6.1 • Science 93%

graphenv: a Python library for reinforcement learning on graph search spaces - Published in JOSS (2022)

Artificial Intelligence and Machine Learning (33%)
Scientific Software · Peer-reviewed
Scientific Software
Updated 10 months ago

cosasi — Peer-reviewed • Rank 5.7 • Science 93%

cosasi: Graph Diffusion Source Inference in Python - Published in JOSS (2022)

Updated 10 months ago

tractor.base • Rank 15.7 • Science 77%

Magnetic resonance imaging and tractography with R

Updated 10 months ago

cytoscape.js-cise • Rank 5.3 • Science 85%

An implementation of the circular layout algorithm by Dogrusoz et al. as a Cytoscape.js extension

Updated 10 months ago

networkit • Rank 22.5 • Science 64%

NetworKit is a growing open-source toolkit for large-scale network analysis.

Updated 10 months ago

kglab • Rank 15.8 • Science 67%

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.

Scientific Software
Updated 10 months ago

BisPy — Peer-reviewed • Rank 4.4 • Science 77%

BisPy: Bisimulation in Python - Published in JOSS (2021)

Updated 10 months ago

suitesparse • Rank 15.5 • Science 59%

The official SuiteSparse library: a suite of sparse matrix algorithms authored or co-authored by Tim Davis, Texas A&M University.

Updated 10 months ago

AtiyahBott • Rank 3.0 • Science 67%

An implementation of the Atiyah-Bott formula for the moduli space of genus 0 stable maps.

Updated 10 months ago

graphtage • Rank 15.7 • Science 44%

A semantic diff utility and library for tree-like files such as JSON, JSON5, XML, HTML, YAML, and CSV.

Updated 10 months ago

phd-dissertation • Rank 1.9 • Science 54%

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.

Updated 10 months ago

iGraphMatch • Rank 10.6 • Science 36%

Tools to find the correspondences between vertices in different graphs.

Updated 10 months ago

https://github.com/cqcl/portgraph • Rank 16.8 • Science 26%

Directed graph with first-level ports in Rust.

Updated 10 months ago

https://github.com/jmrozanec/ts2g2 • Rank 1.1 • Science 36%

Generate graphs from time series and time series from graphs.

Scientific Software
Updated 10 months ago

SPbLA — Peer-reviewed • Rank 3.9 • Science 26%

SPbLA: The Library of GPGPU-powered Sparse Boolean Linear Algebra Operations - Published in JOSS (2022)

Updated 10 months ago

graphsbase.jl • Science 44%

Basic interface and structures for the JuliaGraphs ecosystem

Updated 10 months ago

https://github.com/kahypar/mt-kahypar • Science 49%

Mt-KaHyPar (Multi-Threaded Karlsruhe Hypergraph Partitioner) is a shared-memory multilevel graph and hypergraph partitioner equipped with parallel implementations of techniques used in the best sequential partitioning algorithms. Mt-KaHyPar can partition extremely large hypergraphs very fast and with high quality.

Updated 10 months ago

sssnet_signed_clustering • Science 36%

Official code for the SDM2022 paper -- SSSNET: Semi-Supervised Signed Network Clustering.

Updated 9 months ago

https://github.com/gscholze/graphcream • Science 13%

using graphs to choose ice cream flavors

Updated 10 months ago

https://github.com/amr-yasser226/pagerank-power-method • Science 26%

Modular Python implementation of the PageRank algorithm via the power method, with discrete‑math foundations, end‑to‑end code, and experimental validation.

Updated 10 months ago

community-aware-graph-transformer • Science 67%

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.

Updated 10 months ago

gpugraphlayout • Science 67%

An experimental GPU accelerated implementation of ForceAtlas2

Updated 10 months ago

hypergraphx • Science 67%

HGX is a multi-purpose, open-source Python library for higher-order network analysis

Updated 10 months ago

orbweaver • Science 26%

Orbweaver is an R package that optimizes the processing of graph data structures.

Updated 10 months ago

feasible-edge-replacements • Science 54%

Classes and algorithms for recursive amoeba trees and general framework for feasible edge replacements.

Scientific Software
Updated 10 months ago

IGraph/M — Peer-reviewed • Science 95%

IGraph/M: graph theory and network analysis for Mathematica - Published in JOSS (2023)

Updated 9 months ago

matlab-igraph: bringing igraph to MATLAB • Science 98%

matlab-igraph: bringing igraph to MATLAB - Published in JOSS (2025)

Updated 10 months ago

global-chem • Science 57%

A Knowledge Graph of Common Chemical Names to their Molecular Definition

Updated 10 months ago

idron • Science 44%

Inferring Distance Rankings on Networks

Updated 10 months ago

cytoscape-layout-utilities • Science 75%

Miscellaneous utilities for placement of nodes or components complementary to a main layout algorithm

Updated 10 months ago

https://github.com/alondmnt/scom • Science 13%

algorithm for detecting Spatially Co-evolving Orthologous Modules

Updated 10 months ago

teexgraph • Science 57%

C++ library for large-scale network analysis and computation