persistent-homology

There are 23 repositories under persistent-homology topic.

Ripser / ripser
Ripser: efficient computation of Vietoris–Rips persistence barcodes
persistent-homology computational-topology topological-data-analysis
Language:C++ 299
scikit-tda / ripser.py
A Lean Persistent Homology Library for Python
data-science homology persistent-homology ripser tda topological-data-analysis topology
Language:C++ 260
GUDHI / gudhi-devel
The GUDHI library is a generic open source C++ library, with a Python interface, for Topological Data Analysis (TDA) and Higher Dimensional Geometry Understanding.
topology tda topological-data-analysis python persistent-homology cpp17
Language:C++ 243
BorgwardtLab / topological-autoencoders
Code for the paper "Topological Autoencoders" by Michael Moor, Max Horn, Bastian Rieck, and Karsten Borgwardt.
autoencoder persistent-homology tda topological-data-analysis
Language:Python 128
BorgwardtLab / TOGL
Topological Graph Neural Networks (ICLR 2022)
persistent-homology graph-learning iclr2022 machine-learning graph-classification node-classification pytorch pytorch-geometric
Language:Python 101
Pseudomanifold / Aleph
A library for exploring persistent homology
persistent-homology topological-data-analysis c-plus-plus-11 persistence machine-learning
Language:C++ 98
rivetTDA / rivet
RIVET is a tool for Topological Data Analysis, in particular two-parameter persistent homology.
topological-data-analysis persistent-homology data-science data-visualization algebraic-topology
Language:C++ 69
Ripserer.jl
mtsch / Ripserer.jl
Flexible and efficient persistent homology computation.
cohomology homology julia persistent-homology ripser tda topological-data-analysis topology
Language:Julia 60
BorgwardtLab / P-WL
A Persistent Weisfeiler–Lehman Procedure for Graph Classification
weisfeiler-lehman topological-data-analysis graph-classification persistent-homology graph-kernels machine-learning
Language:Python 58
c-hofer / torchph
The essence of my research, distilled for reusability. Enjoy 🥃!
pytorch deep-learning persistent-homology topological-data-analysis gpu differentiable-persistent-homology
Language:Jupyter Notebook 56
shizuo-kaji / CubicalRipser_3dim
Persistent homology calculation for 1D (scalar time series), 2D (image), and 3D (voxel) arrays
tda persistent-homology
Language:C++ 39
rrrlw / TDAstats
R pipeline for computing persistent homology in topological data analysis. See https://doi.org/10.21105/joss.00860 for more details.
topological-data-analysis homology-calculations cran ripser ggplot2 pipeline r persistent-homology tda homology topology homology-computation visualization data-science r-package joss r-packages topology-visualization
Language:R 37
marrlab / SHAPR_torch
SHAPR: Code for "Capturing Shape Information with Multi-Scale Topological Loss Terms for 3D Reconstruction"
cubical-complexes deep-learning image-reconstruction persistent-homology pytorch segmentation topological-data-analysis topological-machine-learning
Language:Python 31
BorgwardtLab / Neural-Persistence
Code for the paper 'Neural Persistence: A Complexity Measure for Deep Neural Networks Using Algebraic Topology'
algebraic-topology persistent-homology deep-learning neural-networks iclr2019 iclr machine-learning
Language:Python 29
salimandre / unsupervised-image-segmentation-persistent-homology
Unsupervised image segmentation by applying topological data analysis techniques.
covering-tree gudhi image-segmentation persistence-diagrams persistent-homology rips-vietoris-complexes tda traversal-algorithm unsupervised-learning
Language:Python 28
OpenPH
rodrgo / OpenPH
Parallel reduction of boundary matrices for Persistent Homology with CUDA
persistent-homology topological-data-analysis parallel-computing cuda gpu-computing numerical-computation
Language:Cuda 27
scikit-tda / pervect
Vectorization of persistence diagrams and approximate Wasserstein distance
persistent-homology vectorizer wasserstein-metric python topology topological-data-analysis
Language:Jupyter Notebook 26
nebneuron / Simplicial.jl
A package for various computations with simplicial complexes, combinatorial codes, directed complexes and their filtrations.
simplicial-complexes combinatorial-codes directed-complexes homology-computation persistent-homology polar-complex codewords tda dowker-complexes
Language:C++ 24
scikit-tda / cechmate
Custom filtration constructors for Python
phat filtration tda persistent-homology persistence-diagrams custom-filtrations
Language:Python 20
fMRI_Cubical_Persistence
BorgwardtLab / fMRI_Cubical_Persistence
Code of our NeurIPS 2020 publication 'Uncovering the Topology of Time-Varying fMRI Data using Cubical Persistence'
tda topological-data-analysis persistent-homology cubical-complexes cubical-complex neurips-2020 neurips
Language:Python 19
tdaverse / ggtda
ggplot2 extension to visualize persistent homology
ggplot-extension ggplot2 persistence-data persistent-homology r rstats simplicial-complex tda tidyverse topological-data-analysis visualization
Language:R 19
Pseudomanifold / pyper
Python-based persistent homology algorithms
persistent-homology topological-data-analysis
Language:Python 18
shizuo-kaji / HomologyCNN
Homology assisted CNN for image classification
tda persistent-homology cnn image-classification
Language:Python 18
shizuo-kaji / TutorialTopologicalDataAnalysis
Tutorial on Topological Data Analysis
tda persistent-homology tutorial jupyter-notebook nlp
Language:Jupyter Notebook 16
giotto-ai / pyflagser
Python bindings and API for the flagser C++ library (https://github.com/luetge/flagser).
persistent-homology algebraic-topology computational-topology topological-data-analysis
Language:Python 13
mtsch / PersistenceDiagrams.jl
Persistence Diagrams in Julia
bottleneck-distance persistence-diagrams persistent-homology wasserstein-distance
Language:Julia 11
dashtiali / vectorisation-app
This web app can be used to compute and visualize featurized PH barcodes.
persistent-homology topological-data-analysis
Language:Python 10
DavidLapous / multipers
Multiparameter Persistence for Machine Learning
persistent-homology topological-data-analysis tda python cpp cython neurips-2023 icml-2024 multiparameter-persistence
Language:C++ 10
markolalovic / tda-digits
Topological features applied to the digits data set
persistent-homology dionysus topological-data-analysis topological-features machine-learning
Language:Python 10
topolearn / topo-clustering
Fast Topological Clustering with Wasserstein Distance (ICLR 2022)
cluster-analysis complex-networks persistent-homology topological-data-analysis wasserstein-barycenter wasserstein-distance network-representation topological-clustering
Language:Python 9
mtsch / Ripser.jl
Simple Ripser wrapper in Julia
julia tda homology topological-data-analysis computational-topology persistent-homology
Language:Julia 8
chromatic-tda
OnDraganov / chromatic-tda
Tool to compute six-packs of persistence diagrams for chromatic point clouds [packaged on PyPI]
alpha-complex persistent-homology spatial-analysis tda topological-data-analysis
Language:Jupyter Notebook 8
Pseudomanifold / TML
Experiments in topological machine learning
machine-learning machine-learning-algorithms persistent-homology topology
Language:Python 7
rrrlw / ripserr
R package porting Ripser-based persistent homology calculation engines from C++ via Rcpp. Currently ports Ripser (Vietoris-Rips complex) and Cubical Ripser (cubical complex).
ripser topological-data-analysis persistent-homology topology cubical-complex vietoris-complex rips-complex rcpp r cpp point-cloud voxel pixel r-programming r-package r-language simplicial-complex simplicial-homology cohomology algebraic-topology
Language:C++ 7
trneedham / IntroductionToTopologicalDataAnalysis
tda topological-data-analysis persistent-homology
Language:Jupyter Notebook 7
Steenroder / steenroder
Computation of persistence Steenrod barcodes
applied-algebraic-topology computational-topology data-science machine-learning persistent-homology
Language:Jupyter Notebook 6