Case study: Classification of shapes

This notebook explains how to use giotto-tda to be able to classify topologically different high-dimensional spaces.

If you are looking at a static version of this notebook and would like to run its contents, head over to github.

License: AGPLv3

Import libraries

The first step consists in importing relevant giotto-tda components and other useful libraries or modules.

# Importing libraries
from gtda.homology import VietorisRipsPersistence
from gtda.diagrams import PersistenceEntropy

import numpy as np

from gtda.pipeline import Pipeline
from sklearn.linear_model import LogisticRegression

# Plotting functions
from gtda.plotting import plot_diagram, plot_point_cloud, plot_heatmap

Sampling orientable surfaces

We are going to consider three classical topological spaces: the circle, the 2-torus and the 2-sphere. The purpose of this tutorial is to go through the most famous topological spaces and compute their homology groups.

Each of the topological spaces we are going to encounter will be sampled. The resulting point cloud will be the input of the persistent homology pipeline. The first step is to apply the Vietoris–Rips technique to the point cloud. Finally, the persistent homology groups will be computed.

# Representing the circle in 3d with parametric equations.
circle = np.asarray([[np.sin(t),np.cos(t),0] for t in range(400)])