A Python package for Clustering by fast search and find of density peaks
This Python package implements the clustering algorithm proposed by Alex Rodriguez and Alessandro Laio. It generates the initial rho and delta values for each observation then use these values to assign observations to clusters.
This version is for both python2 and python3. The first step is to install Python. Python is available from the Python project page. Dcluster depends on numpy and matplotlib. The next step is to install Dcluster.
$ python setup.py install
Or install from PyPi using pip , a package manager for Python:
$ pip install Dcluster
The only input is the distance metrics between observations. See the test.dat. Dcluster supports interacive clustering based on Decision Graph:
import Dcluster as dcl filein="test.dat" dcl.run(fi=filein, sep='\t')
See the test.dat in test/. One can choose different cluster centers based on Decision Graph. And please first press key ‘n’ then ‘Enter’ to quit. Result will be saved automatically.
Author: Guipeng Li
Rodriguez, A., & Laio, A. (2014). Clustering by fast search and find of density peaks. Science, 344(6191), 1492-1496. (paper)