UMAP — Peer-reviewed • Rank 29.1 • Science 95%

UMAP: Uniform Manifold Approximation and Projection - Published in JOSS (2018)

Ripser.py — Peer-reviewed • Rank 18.9 • Science 95%

Ripser.py: A Lean Persistent Homology Library for Python - Published in JOSS (2018)

multipers — Peer-reviewed • Rank 13.6 • Science 100%

multipers: Multiparameter Persistence for Machine Learning - Published in JOSS (2024)

Teaspoon — Peer-reviewed • Rank 13.5 • Science 95%

Teaspoon: A Python Package for Topological Signal Processing - Published in JOSS (2025)

Ripserer.jl — Peer-reviewed • Rank 8.7 • Science 98%

Ripserer.jl: flexible and efficient persistent homology computation in Julia - Published in JOSS (2020)

Kepler Mapper — Peer-reviewed • Rank 9.9 • Science 95%

Kepler Mapper: A flexible Python implementation of the Mapper algorithm. - Published in JOSS (2019)

TDAstats — Peer-reviewed • Rank 11.3 • Science 93%

TDAstats: R pipeline for computing persistent homology in topological data analysis - Published in JOSS (2018)

DREiMac — Peer-reviewed • Rank 9.7 • Science 93%

DREiMac: Dimensionality Reduction with Eilenberg-MacLane Coordinates - Published in JOSS (2023)

Persistable — Peer-reviewed • Rank 9.5 • Science 93%

Persistable: persistent and stable clustering - Published in JOSS (2023)

ect: A Python Package for the Euler Characteristic Transform • Rank 8.5 • Science 89%

ect: A Python Package for the Euler Characteristic Transform - Published in JOSS (2026)

chromatic_tda • Rank 7.4 • Science 77%

Tool to compute six-packs of persistence diagrams for chromatic point clouds [packaged on PyPI]

findpeaks • Rank 16.8 • Science 64%

The detection of peaks and valleys in a 1d-vector or 2d-array (image)

ccsd • Rank 7.5 • Science 64%

Combinatorial Complex Score-based Diffusion model using stochastic differential equations

math-text-semantic-networks • Rank 1.8 • Science 54%

Python code for construction and analysis of semantic networks from text.

tdaunif • Rank 9.5 • Science 46%

uniform samplers from immersed manifolds

tdaonabrainnetwork • Rank 1.4 • Science 44%

Topological Data Analysis on a Brain Network

https://github.com/braindynamicslab/dyneusr • Rank 10.1 • Science 33%

Dynamical Neuroimaging Spatiotemporal Representations (DyNeuSR)

giotto-tda • Rank 19.6 • Science 23%

A high-performance topological machine learning toolbox in Python

tmap • Rank 11.5 • Science 13%

topological data analysis of population-scale microbiomes

https://github.com/corybrunson/landmark • Rank 2.5 • Science 13%

procedures to generate landmark sets from finite metric spaces

https://github.com/corybrunson/plt-topdown • Science 23%

R interface to & implementation of the Persistence Landscapes Toolbox

topologyml-electrode-polarization • Science 54%

Code accompanying the paper "Topology-Informed Machine Learning for Efficient Prediction of Solid Oxide Fuel Cell Electrode Polarization" by M. Szemer, Sz. Buchaniec, M. Prokop, and G. Brus

tda-mapper • Science 39%

A simple and efficient Python implementation of Mapper algorithm for Topological Data Analysis

network_tda_tutorial • Science 49%

This repository is dedicated for the tutorial on network and topological neuroscience.

vectorisation-app • Science 54%

This web app can be used to compute and visualize featurized PH barcodes.

tdarec • Science 26%

recipes + dials extension for persistent homology and vectorizations thereof

toponetx • Science 67%

Computing on Topological Domains

https://github.com/corybrunson/plt • Science 36%

R interface & extension to an adapted Persistence Landscapes Toolbox

https://github.com/cimagroup/vectorization-maps • Science 26%

dowker_persistence • Science 54%

Code for computing Dowker persistence diagrams