Ripser / ripser
Star 187
- Code
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Ripser: efficient computation of VietorisRips persistence barcodes
persistent-homology topological-data-analysis computational-topology
- UpdatedDec 1, 2021
- C++
scikit-tda / ripser.py
Star 165
- Code
- Issues
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A Lean Persistent Homology Library for Python
data-science topology notebook cython scikit-learn doi trouble persistent-homology topological-data-analysis tda homology ripser
- UpdatedDec 11, 2021
- C++
GUDHI / gudhi-devel
Star 140
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- Discussions
Open
[python - SimplexTree] SimplexTree.copy[]
mglisse commentedNov 6, 2019
It could be useful to have a way to clone a simplex tree, more efficiently than a loop on get_filtration doing inserts [we have a copy constructor in C++].
Read more
enhancement good first issue
Open
[python - SimplexTree] SimplexTree.copy[]
mglisse commentedNov 6, 2019
It could be useful to have a way to clone a simplex tree, more efficiently than a loop on get_filtration doing inserts [we have a copy constructor in C++].
Read more
enhancement good first issue
Pseudomanifold / Aleph
Star 79
- Code
- Issues
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A library for exploring persistent homology
machine-learning c-plus-plus-11 persistence persistent-homology topological-data-analysis
- UpdatedSep 25, 2021
- C++
BorgwardtLab / topological-autoencoders
Star 60
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Code for the paper "Topological Autoencoders" by Michael Moor, Max Horn, Bastian Rieck, and Karsten Borgwardt.
autoencoder persistent-homology topological-data-analysis tda
- UpdatedSep 8, 2021
- Python
BorgwardtLab / P-WL
Star 51
- Code
- Issues
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A Persistent WeisfeilerLehman Procedure for Graph Classification
machine-learning persistent-homology topological-data-analysis graph-kernels weisfeiler-lehman graph-classification
- UpdatedJun 9, 2021
- Python
rivetTDA / rivet
Star 43
- Code
- Issues
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RIVET is a tool for Topological Data Analysis, in particular two-parameter persistent homology.
data-science data-visualization algebraic-topology persistent-homology topological-data-analysis
- UpdatedOct 11, 2021
- C++
c-hofer / torchph
Star 32
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The essence of my research, distilled for reusability. Enjoy!
deep-learning gpu pytorch persistent-homology topological-data-analysis differentiable-persistent-homology
- UpdatedOct 7, 2020
- Jupyter Notebook
mtsch / Ripserer.jl
Star 25
- Code
- Issues
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Flexible and efficient persistent homology computation.
topology julia persistent-homology topological-data-analysis tda homology ripser cohomology
- UpdatedJan 5, 2022
- Julia
rrrlw / TDAstats
Star 23
- Code
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R pipeline for computing persistent homology in topological data analysis. See //doi.org/10.21105/joss.00860 for more details.
visualization data-science ggplot2 cran r topology pipeline r-package joss persistent-homology topological-data-analysis tda homology ripser r-packages homology-computation homology-calculations topology-visualization
- UpdatedNov 23, 2021
- R
nebneuron / Simplicial.jl
Star 22
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A package for various computations with simplicial complexes, combinatorial codes, directed complexes and their filtrations.
simplicial-complexes persistent-homology tda homology-computation combinatorial-codes directed-complexes polar-complex codewords dowker-complexes
- UpdatedMay 3, 2021
- C++
BorgwardtLab / Neural-Persistence
Star 21
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Code for the paper 'Neural Persistence: A Complexity Measure for Deep Neural Networks Using Algebraic Topology'
machine-learning deep-learning neural-networks algebraic-topology persistent-homology iclr iclr2019
- UpdatedFeb 25, 2019
- Python
scikit-tda / pervect
Star 17
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Vectorization of persistence diagrams and approximate Wasserstein distance
python topology vectorizer persistent-homology topological-data-analysis wasserstein-metric
- UpdatedFeb 25, 2020
- Jupyter Notebook
rodrgo / OpenPH
Star 14
- Code
- Issues
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Parallel reduction of boundary matrices for Persistent Homology with CUDA
parallel-computing cuda gpu-computing persistent-homology topological-data-analysis numerical-computation
- UpdatedAug 12, 2021
- Cuda
salimandre / unsupervised-image-segmentation-persistent-homology
Star 13
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Unsupervised image segmentation by applying topological data analysis techniques.
image-segmentation unsupervised-learning persistent-homology tda persistence-diagrams gudhi traversal-algorithm rips-vietoris-complexes covering-tree
- UpdatedFeb 13, 2020
- Python
scikit-tda / cechmate
Star 13
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Custom filtration constructors for Python
phat persistent-homology tda filtration persistence-diagrams custom-filtrations boundary-matrices
- UpdatedDec 23, 2021
- Python
shizuo-kaji / CubicalRipser_3dim
Star 10
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Persistent homology calculation for 1D [scalar time series], 2D [image], and 3D [voxel] arrays
persistent-homology tda
- UpdatedDec 29, 2021
- C++
BorgwardtLab / fMRI_Cubical_Persistence
Star 10
- Code
- Issues
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Code of our NeurIPS 2020 publication 'Uncovering the Topology of Time-Varying fMRI Data using Cubical Persistence'
persistent-homology topological-data-analysis tda neurips cubical-complex cubical-complexes neurips-2020
- UpdatedOct 22, 2020
- Python
Pseudomanifold / pyper
Star 8
- Code
- Issues
- Pull requests
Python-based persistent homology algorithms
persistent-homology topological-data-analysis
- UpdatedAug 31, 2021
- Python
mtsch / Ripser.jl
Star 8
- Code
- Issues
- Pull requests
Simple Ripser wrapper in Julia
julia persistent-homology topological-data-analysis tda computational-topology homology
- UpdatedJun 3, 2020
- Julia
rrrlw / ggtda
Star 7
- Code
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ggplot2 extension to visualize persistent homology.
visualization ggplot2 cran r barcode tidyverse rstats persistent-homology topological-data-analysis tda ggplot-extension ggplot2-geom ggplot2-stat persistence-data vietoris-complex
- UpdatedNov 14, 2021
- R
giotto-ai / pyflagser
Star 7
- Code
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Open
Feature request: Allow [read only] access to the directed flag complex via python
16
flomlo commentedDec 18, 2020
Motivation
The implementation of the data structure needed for the directed flag complex seems to be quite memory efficient in the flagser code. The same holds true for the generation of the directed flag complex.
Despite betti-numbers and simplex counts, which are currently ava
Read more
enhancement good first issue
Open
Feature request: Allow [read only] access to the directed flag complex via python
16
flomlo commentedDec 18, 2020
Motivation
The implementation of the data structure needed for the directed flag complex seems to be quite memory efficient in the flagser code. The same holds true for the generation of the directed flag complex.
Despite betti-numbers and simplex counts, which are currently ava
Read more
enhancement good first issue
shizuo-kaji / TutorialTopologicalDataAnalysis
Star 6
- Code
- Issues
- Pull requests
Tutorial on Topological Data Analysis
nlp tutorial jupyter-notebook persistent-homology tda
- UpdatedOct 4, 2021
- HTML
trneedham / IntroductionToTopologicalDataAnalysis
Star 5
- Code
- Issues
- Pull requests
persistent-homology topological-data-analysis tda
- UpdatedMay 30, 2019
- Jupyter Notebook
shizuo-kaji / HomologyCNN
Star 5
- Code
- Issues
- Pull requests
Homology assisted CNN for image classification
cnn image-classification persistent-homology tda
- UpdatedMay 19, 2020
- Python
Pseudomanifold / TML
Star 5
- Code
- Issues
- Pull requests
Experiments in topological machine learning
machine-learning topology machine-learning-algorithms persistent-homology
- UpdatedSep 25, 2021
- Python
Pseudomanifold / enchiridion-tda
Star 4
- Code
- Issues
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An enchiridion for instructing mortals in the hidden arts of topological data analysis
topology data-analysis persistent-homology graph-kernels
- UpdatedSep 23, 2021
- Python
gjkoplik / pers-hom-examples
Star 4
- Code
- Issues
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A placeholder repo to hold widgets for my Towards Data Science persistent homology medium article.
persistent-homology tda
- UpdatedOct 29, 2019
- HTML
mtsch / PersistenceDiagrams.jl
Star 4
- Code
- Issues
- Pull requests
Persistence Diagrams in Julia
persistent-homology persistence-diagrams bottleneck-distance wasserstein-distance
- UpdatedJan 5, 2022
- Julia
rrrlw / visual-tda
Star 3
- Code
- Issues
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R code associated with preprint proposing flat persistence diagram for better visualization of persistent homology.
r data-visualization data-visualisation persistent-homology topological-data-analysis
- UpdatedOct 25, 2019
- R