pydpc - a Python package for Density Peak-based Clustering
Clustering by fast search and find of density peaks was designed by Alex Rodriguez and Alessandro Laio; see their project page for more information.
The pydpc package aims to make this algorithm available for Python users.
Installation
Install pydpc via pip from the Python package index
pip install pydpc
or the latest version from github
pip install git+https://github.com/cwehmeyer/pydpc.git@master
Quick start
import numpy as np
from pydpc import Cluster
# a simple bimodal data set: two gaussian blobs centered at x=-4 and x=+4
npoints = 1000
points = np.random.randn(npoints, 2)
points[:, 0] += 4 * np.random.choice([-1, 1], size=npoints)
# computes distances, density, and delta, then shows the decision graph
clu = Cluster(points)
# pick outliers in the decision graph as cluster centers and assign points
clu.assign(min_density=25, min_delta=6)
clu.membership # cluster index for each point
clu.core_idx # indices of high-confidence ("core") points
clu.halo_idx # indices of low-confidence ("halo") points
See docs/examples/Example01.ipynb for a full walkthrough with plots.
See CHANGELOG.md for release history.
1 maintainer
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