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Cluster analysis methods seek to partition a data set into homogeneous subgroups. It is useful in a wide variety of applications, including document processing and modern genetics. Conventional clustering methods are unsupervised, meaning…

Gene expression data is often collected in time series experiments, under different experimental conditions. There may be genes that have very different gene expression profiles over time, but that adjust their gene expression patterns in…

In this paper, we study k-means++ and k-means++ parallel, the two most popular algorithms for the classic k-means clustering problem. We provide novel analyses and show improved approximation and bi-criteria approximation guarantees for…

A C# implementation of a generalized k-means variant called relational k-means is described here. Relational k-means is a generalization of the well-known k-means clustering method which works for non-Euclidean scenarios as well. The input…

Kernel-based clustering algorithms have the ability to capture the non-linear structure in real world data. Among various kernel-based clustering algorithms, kernel k-means has gained popularity due to its simple iterative nature and ease…

Finding the number of meaningful clusters in an unlabeled dataset is important in many applications. Regularized k-means algorithm is a possible approach frequently used to find the correct number of distinct clusters in datasets. The most…

Many algorithms for approximate nearest neighbor search in high-dimensional spaces partition the data into clusters. At query time, in order to avoid exhaustive search, an index selects the few (or a single) clusters nearest to the query…

The recent framework of compressive statistical learning aims at designing tractable learning algorithms that use only a heavily compressed representation-or sketch-of massive datasets. Compressive K-Means (CKM) is such a method: it…

This thesis aims to invent new approaches for making inferences with the k-means algorithm. k-means is an iterative clustering algorithm that randomly assigns k centroids, then assigns data points to the nearest centroid, and updates…

Loss-based clustering methods, such as k-means and its variants, are standard tools for finding groups in data. However, the lack of quantification of uncertainty in the estimated clusters is a disadvantage. Model-based clustering based on…

Various approaches to alignment-free sequence comparison are based on the length of exact or inexact word matches between two input sequences. Haubold {\em et al.} (2009) showed how the average number of substitutions between two DNA…

In the past few years powerful generalizations to the Euclidean k-means problem have been made, such as Bregman clustering [7], co-clustering (i.e., simultaneous clustering of rows and columns of an input matrix) [9,18], and tensor…

We use a cluster ensemble to determine the number of clusters, k, in a group of data. A consensus similarity matrix is formed from the ensemble using multiple algorithms and several values for k. A random walk is induced on the graph…

The classical $k$-means algorithm for partitioning $n$ points in $\mathbb{R}^d$ into $k$ clusters is one of the most popular and widely spread clustering methods. The need to respect prescribed lower bounds on the cluster sizes has been…

The $k$-Means clustering problem on $n$ points is NP-Hard for any dimension $d\ge 2$, however, for the 1D case there exists exact polynomial time algorithms. Previous literature reported an $O(kn^2)$ time dynamic programming algorithm that…

We address the problem of validating the ouput of clustering algorithms. Given data $\mathcal{D}$ and a partition $\mathcal{C}$ of these data into $K$ clusters, when can we say that the clusters obtained are correct or meaningful for the…

We propose a novel graph clustering method guided by additional information on the underlying structure of the clusters (or communities). The problem is formulated as the matching of a graph to a template with smaller dimension, hence…

We provide algorithms for performing computations in generalized numerical semigroups, that is, submonoids of $\mathbb{N}^{d}$ with finite complement in $\mathbb{N}^{d}$. These semigroups are affine semigroups, which in particular implies…

Among ensemble clustering methods, Evidence Accumulation Clustering is one of the simplest technics. In this approach, a co-association (CA) matrix representing the co-clustering frequency is built and then clustered to extract consensus…

Previously, we proposed a physically inspired rule to organize the data points in a sparse yet effective structure, called the in-tree (IT) graph, which is able to capture a wide class of underlying cluster structures in the datasets,…