multishapes

Data containing clusters of any shapes. Useful for comparing
density-based clustering (DBSCAN) and standard partitioning methods such as
k-means clustering. Imported from the factoextra package.

Density-based clustering methods are well adapted to the clustering of high-dimensional data and enable the discovery of core groups of various shapes despite large amounts of noise. This package provides a novel density-based cluster extraction method, OPTICS k-Xi, and a framework to compare k-Xi models using distance-based metrics to investigate datasets with unknown number of clusters. The vignette first introduces density-based algorithms with simulated datasets, then presents and evaluates the k-Xi cluster extraction method. Finally, the models comparison framework is described and experimented on 2 genetic datasets to identify groups and their discriminating features. The k-Xi algorithm is a novel OPTICS cluster extraction method that specifies directly the number of clusters and does not require fine-tuning of the steepness parameter as the OPTICS Xi method. Combined with a framework that compares models with varying parameters, the OPTICS k-Xi method can identify groups in noisy datasets with unknown number of clusters. Results on summarized genetic data of 1,200 patients are in Charlon T. (2019) <doi:10.13097/archive-ouverte/unige:161795>.

Thomas Charlon

opticskxi

OPTICS K-Xi Density-Based Clustering

multishapes function

A data frame with 1100 observations on the following 3 variables.<dl>
<dt><code>x</code></dt>
<dd>a numeric vector containing the x coordinates of observations</dd><dt><code>y</code></dt>
<dd>a numeric vector containing the y coordinates of observations</dd><dt><code>shape</code></dt>
<dd>a numeric vector corresponding to the cluster number of each observations.</dd>
</dl>

Format

A dataset containing clusters of multiple shapes — multishapes

A data frame with 1100 observations on the following 3 variables.<dl>
<dt><code>x</code></dt>
<dd>a numeric vector containing the x coordinates of observations</dd>

<dt><code>y</code></dt>
<dd>a numeric vector containing the y coordinates of observations</dd>

<dt><code>shape</code></dt>
<dd>a numeric vector corresponding to the cluster number of each observations.</dd>


</dl>

multishapes: A dataset containing clusters of multiple shapes

Description

Usage

Arguments

Format

Details

Examples