Coperto

Fast and exact persistent homology via quotient Vietoris-Rips filtrations.

Installation

pip install coperto

Usage

import numpy as np
import coperto
# Generate a simple point cloud (e.g. 100 points on a noisy circle)
theta = np.linspace(0, 2 * np.pi, 100)
data = np.column_stack([np.cos(theta), np.sin(theta)]) + 0.05 * np.random.randn(100, 2)
# Compute persistent homology up to dimension 1 (H0 = components, H1 = loops)
barcodes = coperto.persistent_homology(data, max_dim=1)
# Each entry is (dimension, birth, death)
for dim, birth, death in barcodes:
    print(f"H{dim}: [{birth:.3f}, {death:.3f})")

Parameters for persistent_homology:

Parameter Default Description
data — NumPy array of shape (n_points, n_dims)
max_dim 1 Maximum homological dimension to compute
greedy True Use greedy linkage (faster); set False for exact tie-breaking
use_128bit False Use 128-bit arithmetic in the persistence computation
Returns: list of (dim, birth, death) tuples.

Note: use_128bit=True is only available on Linux and macOS. Windows does not support 128-bit integers (__int128). Passing use_128bit=True on Windows will raise a RuntimeError.

Reproducing the paper benchmarks

Clone the repository and run the benchmark script from the examples directory:

git clone https://github.com/antonio-leitao/coperto.git
cd coperto
uv run python examples/main.py

Results are saved to examples/results/main_benchmark.csv. The benchmark compares Coperto against Ripser on ten datasets: C. elegans, Vicsek, Klein bottle (400 and 900 points), Dragon (1k and 2k), HIV1, O(3) (1024 and 2048), and PBMC3k.

Project links

Key dates

PyPI data
Data sourced directly from PyPI's database.
  • Released:
Latest release

1 maintainer

PyPI data
Data sourced directly from PyPI's database.
Avatar for leitao from gravatar.com leitao

Credits

Author: António Leitão

License

MIT

Requires

Python >=3.10

Classifiers

Metadata

Project links

Key dates

PyPI data
Data sourced directly from PyPI's database.
  • Released:
Latest release

1 maintainer

PyPI data
Data sourced directly from PyPI's database.
Avatar for leitao from gravatar.com leitao

Credits

Author: António Leitão

License

MIT

Requires

Python >=3.10

Classifiers

Release files for coperto 0.1.7

For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.

Source distribution (sdist)

Source distribution for coperto 0.1.7
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coperto-0.1.7.tar.gz 11.1 MB Without provenance Details for coperto-0.1.7.tar.gz

Built distributions (wheels)

Table of built distributions (wheels) for coperto 0.1.7
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coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_x86_64.whl 377.2 kB Without provenance PyPy 3.11 PyPy 3.11 7.3 Linux glibc 2.28+ x86-64 Details for coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_x86_64.whl
coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_i686.whl 379.0 kB Without provenance PyPy 3.11 PyPy 3.11 7.3 Linux glibc 2.28+ x86-32 Details for coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_i686.whl
coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_armv7l.whl 351.2 kB Without provenance PyPy 3.11 PyPy 3.11 7.3 Linux glibc 2.28+ ARMv7l Details for coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_armv7l.whl
coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_aarch64.whl 384.7 kB Without provenance PyPy 3.11 PyPy 3.11 7.3 Linux glibc 2.28+ ARM64 Details for coperto-0.1.7-pp311-pypy311_pp73-manylinux_2_28_aarch64.whl
coperto-0.1.7-cp314-cp314t-manylinux_2_28_armv7l.whl 345.2 kB Without provenance CPython 3.14 CPython 3.14 free-threading Linux glibc 2.28+ ARMv7l Details for coperto-0.1.7-cp314-cp314t-manylinux_2_28_armv7l.whl
coperto-0.1.7-cp314-cp314t-manylinux_2_28_aarch64.whl 378.0 kB Without provenance CPython 3.14 CPython 3.14 free-threading Linux glibc 2.28+ ARM64 Details for coperto-0.1.7-cp314-cp314t-manylinux_2_28_aarch64.whl
coperto-0.1.7-cp314-cp314-win_amd64.whl 185.0 kB Without provenance CPython 3.14 CPython 3.14 Windows x86-64 Details for coperto-0.1.7-cp314-cp314-win_amd64.whl
coperto-0.1.7-cp314-cp314-manylinux_2_28_x86_64.whl 372.0 kB Without provenance CPython 3.14 CPython 3.14 Linux glibc 2.28+ x86-64 Details for coperto-0.1.7-cp314-cp314-manylinux_2_28_x86_64.whl
coperto-0.1.7-cp314-cp314-manylinux_2_28_i686.whl 374.5 kB Without provenance CPython 3.14 CPython 3.14 Linux glibc 2.28+ x86-32 Details for coperto-0.1.7-cp314-cp314-manylinux_2_28_i686.whl
coperto-0.1.7-cp314-cp314-manylinux_2_28_armv7l.whl 346.3 kB Without provenance CPython 3.14 CPython 3.14 Linux glibc 2.28+ ARMv7l Details for coperto-0.1.7-cp314-cp314-manylinux_2_28_armv7l.whl
coperto-0.1.7-cp314-cp314-manylinux_2_28_aarch64.whl 378.8 kB Without provenance CPython 3.14 CPython 3.14 Linux glibc 2.28+ ARM64 Details for coperto-0.1.7-cp314-cp314-manylinux_2_28_aarch64.whl
coperto-0.1.7-cp314-cp314-macosx_11_0_arm64.whl 330.2 kB Without provenance CPython 3.14 CPython 3.14 macOS 11.0+ ARM64 Details for coperto-0.1.7-cp314-cp314-macosx_11_0_arm64.whl
coperto-0.1.7-cp314-cp314-macosx_10_12_x86_64.whl 336.4 kB Without provenance CPython 3.14 CPython 3.14 macOS 10.12+ x86-64 Details for coperto-0.1.7-cp314-cp314-macosx_10_12_x86_64.whl
coperto-0.1.7-cp313-cp313t-manylinux_2_28_armv7l.whl 344.6 kB Without provenance CPython 3.13 CPython 3.13 free-threading Linux glibc 2.28+ ARMv7l Details for coperto-0.1.7-cp313-cp313t-manylinux_2_28_armv7l.whl
coperto-0.1.7-cp313-cp313t-manylinux_2_28_aarch64.whl 378.5 kB Without provenance CPython 3.13 CPython 3.13 free-threading Linux glibc 2.28+ ARM64 Details for coperto-0.1.7-cp313-cp313t-manylinux_2_28_aarch64.whl
coperto-0.1.7-cp313-cp313-win_amd64.whl 184.8 kB Without provenance CPython 3.13 CPython 3.13 Windows x86-64 Details for coperto-0.1.7-cp313-cp313-win_amd64.whl
coperto-0.1.7-cp313-cp313-win32.whl 182.9 kB Without provenance CPython 3.13 CPython 3.13 Windows x86-32 Details for coperto-0.1.7-cp313-cp313-win32.whl
coperto-0.1.7-cp313-cp313-manylinux_2_28_x86_64.whl 372.6 kB Without provenance CPython 3.13 CPython 3.13 Linux glibc 2.28+ x86-64 Details for coperto-0.1.7-cp313-cp313-manylinux_2_28_x86_64.whl
coperto-0.1.7-cp313-cp313-manylinux_2_28_i686.whl 374.4 kB Without provenance CPython 3.13 CPython 3.13 Linux glibc 2.28+ x86-32 Details for coperto-0.1.7-cp313-cp313-manylinux_2_28_i686.whl
coperto-0.1.7-cp313-cp313-manylinux_2_28_armv7l.whl 346.6 kB Without provenance CPython 3.13 CPython 3.13 Linux glibc 2.28+ ARMv7l Details for coperto-0.1.7-cp313-cp313-manylinux_2_28_armv7l.whl
coperto-0.1.7-cp313-cp313-manylinux_2_28_aarch64.whl 379.6 kB Without provenance CPython 3.13 CPython 3.13 Linux glibc 2.28+ ARM64 Details for coperto-0.1.7-cp313-cp313-manylinux_2_28_aarch64.whl
coperto-0.1.7-cp313-cp313-macosx_11_0_arm64.whl 330.3 kB Without provenance CPython 3.13 CPython 3.13 macOS 11.0+ ARM64 Details for coperto-0.1.7-cp313-cp313-macosx_11_0_arm64.whl
coperto-0.1.7-cp313-cp313-macosx_10_12_x86_64.whl 337.2 kB Without provenance CPython 3.13 CPython 3.13 macOS 10.12+ x86-64 Details for coperto-0.1.7-cp313-cp313-macosx_10_12_x86_64.whl
coperto-0.1.7-cp312-cp312-win_amd64.whl 185.2 kB Without provenance CPython 3.12 CPython 3.12 Windows x86-64 Details for coperto-0.1.7-cp312-cp312-win_amd64.whl
coperto-0.1.7-cp312-cp312-manylinux_2_28_x86_64.whl 372.9 kB Without provenance CPython 3.12 CPython 3.12 Linux glibc 2.28+ x86-64 Details for coperto-0.1.7-cp312-cp312-manylinux_2_28_x86_64.whl
coperto-0.1.7-cp312-cp312-manylinux_2_28_i686.whl 375.1 kB Without provenance CPython 3.12 CPython 3.12 Linux glibc 2.28+ x86-32 Details for coperto-0.1.7-cp312-cp312-manylinux_2_28_i686.whl
coperto-0.1.7-cp312-cp312-manylinux_2_28_armv7l.whl 346.5 kB Without provenance CPython 3.12 CPython 3.12 Linux glibc 2.28+ ARMv7l Details for coperto-0.1.7-cp312-cp312-manylinux_2_28_armv7l.whl
coperto-0.1.7-cp312-cp312-manylinux_2_28_aarch64.whl 379.9 kB Without provenance CPython 3.12 CPython 3.12 Linux glibc 2.28+ ARM64 Details for coperto-0.1.7-cp312-cp312-manylinux_2_28_aarch64.whl
coperto-0.1.7-cp312-cp312-macosx_11_0_arm64.whl 330.6 kB Without provenance CPython 3.12 CPython 3.12 macOS 11.0+ ARM64 Details for coperto-0.1.7-cp312-cp312-macosx_11_0_arm64.whl
coperto-0.1.7-cp312-cp312-macosx_10_12_x86_64.whl 337.8 kB Without provenance CPython 3.12 CPython 3.12 macOS 10.12+ x86-64 Details for coperto-0.1.7-cp312-cp312-macosx_10_12_x86_64.whl
coperto-0.1.7-cp311-cp311-win_amd64.whl 186.1 kB Without provenance CPython 3.11 CPython 3.11 Windows x86-64 Details for coperto-0.1.7-cp311-cp311-win_amd64.whl
coperto-0.1.7-cp311-cp311-manylinux_2_28_x86_64.whl 374.8 kB Without provenance CPython 3.11 CPython 3.11 Linux glibc 2.28+ x86-64 Details for coperto-0.1.7-cp311-cp311-manylinux_2_28_x86_64.whl
coperto-0.1.7-cp311-cp311-manylinux_2_28_i686.whl 378.0 kB Without provenance CPython 3.11 CPython 3.11 Linux glibc 2.28+ x86-32 Details for coperto-0.1.7-cp311-cp311-manylinux_2_28_i686.whl
coperto-0.1.7-cp311-cp311-manylinux_2_28_armv7l.whl 349.7 kB Without provenance CPython 3.11 CPython 3.11 Linux glibc 2.28+ ARMv7l Details for coperto-0.1.7-cp311-cp311-manylinux_2_28_armv7l.whl
coperto-0.1.7-cp311-cp311-manylinux_2_28_aarch64.whl 381.7 kB Without provenance CPython 3.11 CPython 3.11 Linux glibc 2.28+ ARM64 Details for coperto-0.1.7-cp311-cp311-manylinux_2_28_aarch64.whl
coperto-0.1.7-cp311-cp311-macosx_11_0_arm64.whl 331.4 kB Without provenance CPython 3.11 CPython 3.11 macOS 11.0+ ARM64 Details for coperto-0.1.7-cp311-cp311-macosx_11_0_arm64.whl
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coperto-0.1.7-cp310-cp310-win_amd64.whl 185.9 kB Without provenance CPython 3.10 CPython 3.10 Windows x86-64 Details for coperto-0.1.7-cp310-cp310-win_amd64.whl
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0.1.7 This release

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