GitHub - ethanyxu/ADPclust: Fast Clustering Using Adaptive Density Peak Detection (original) (raw)

Introduction

ADPclust (Fast Clustering Using Adaptive Density Peak Detection) is a non-iterative procedure that clusters high dimensional data by finding cluster centers from estimated density peaks. It incorporates multivariate local Gaussian density estimation. The number of clusters as well as bandwidths can either be selected by the user or selected automatically through an internal clustering criterion.

Most recent version: 0.7

References

• Vignette: https://cran.r-project.org/web/packages/ADPclust/vignettes/ADPclust.html
• CRAN release (0.7): https://cran.r-project.org/web/packages/ADPclust/index.html
• Journal paper:
  • Xiao-Feng Wang, and Yifan Xu, (2015) "Fast Clustering Using Adaptive Density Peak Detection." Statistical Methods in Medical Research, doi:10.1177/0962280215609948 (PubMed Link)
  • Alex Rodriguez, and Alessandro Laio, (2014) "Clustering by fast search and find of density peaks." Science 344, no. 6191 (2014): 1492-1496

Installation

Install the most recent version from github:

In R do:

Skip this line if you already have devtools installed

install.packages("devtools") library(devtools) install_github("ethanyxu/ADPclust") library(ADPclust)

OR install the released version from CRAN

In R do:

install.packages("ADPclust") library(ADPclust)

Simple Examples

Run on a preloaded data set:

library(ADPclust) data(clust3)

Automatic clustering

ans <- adpclust(clust3) plot(ans) summary(ans)

Manual centroids selection

adpclust(clust3, centroids = "user")

For more examples please see the Vignette.