Related papers: Unsupervised cryo-EM data clustering through adapt…

Different tasks in the computational pipeline of single-particle cryo-electron microscopy (cryo-EM) require enhancing the quality of the highly noisy raw images. To this end, we develop an efficient algorithm for signal enhancement of…

Cryo-electron microscopy (cryo-EM) has recently become a premier method for obtaining high-resolution structures of biological macromolecules. However, it is limited to biomolecular samples with low conformational heterogeneity, where all…

Motivated by the 2D class averaging problem in single-particle cryo-electron microscopy (cryo-EM), we present a k-means algorithm based on a rotationally-invariant Wasserstein metric for images. Unlike existing methods that are based on…

K-Means clustering algorithm is one of the most commonly used clustering algorithms because of its simplicity and efficiency. K-Means clustering algorithm based on Euclidean distance only pays attention to the linear distance between…

Kernel $k$-means clustering is a powerful tool for unsupervised learning of non-linearly separable data. Since the earliest attempts, researchers have noted that such algorithms often become trapped by local minima arising from…

Clustering is a widely used and powerful machine learning technique, but its effectiveness is often limited by the need to specify the number of clusters, k, or by relying on thresholds that implicitly determine k. We introduce k*-means, a…

Kernel-based K-means clustering has gained popularity due to its simplicity and the power of its implicit non-linear representation of the data. A dominant concern is the memory requirement since memory scales as the square of the number of…

Many clustering algorithms exist that estimate a cluster centroid, such as K-means, K-medoids or mean-shift, but no algorithm seems to exist that clusters data by returning exactly K meaningful modes. We propose a natural definition of a…

Cryo-electron microscopy (cryo-EM) is capable of producing reconstructed 3D images of biomolecules at near-atomic resolution. As such, it represents one of the most promising imaging techniques in structural biology. However, raw cryo-EM…

We consider a network of binary-valued sensors with a fusion center. The fusion center has to perform K-means clustering on the binary data transmitted by the sensors. In order to reduce the amount of data transmitted within the network,…

This work proposes a clusterization algorithm called k-Morphological Sets (k-MS), based on morphological reconstruction and heuristics. k-MS is faster than the CPU-parallel k-Means in worst case scenarios and produces enhanced…

Identifying a set of homogeneous clusters in a heterogeneous dataset is one of the most important classes of problems in statistical modeling. In the realm of unsupervised partitional clustering, k-means is a very important algorithm for…

We consider the problem of clustering with $K$-means and Gaussian mixture models with a constraint on the separation between the centers in the context of real-valued data. We first propose a dynamic programming approach to solving the…

Single-particle cryo-electron microscopy (cryo-EM) is an emerging imaging modality capable of visualizing proteins and macro-molecular complexes at near-atomic resolution. The low electron-doses used to prevent sample radiation damage,…

Many measurement modalities which perform imaging by probing an object pixel-by-pixel, such as via Photoacoustic Microscopy, produce a multi-dimensional feature (typically a time-domain signal) at each pixel. In principle, the many degrees…

Cryogenic electron microscopy (cryo-EM) provides images from different copies of the same biomolecule in arbitrary orientations. Here, we present an end-to-end unsupervised approach that learns individual particle orientations from cryo-EM…

Clustering algorithms remain valuable tools for grouping and summarizing the most important aspects of data. Example areas where this is the case include image segmentation, dimension reduction, signals analysis, model order reduction,…

Cryo-electron microscopy (cryo-EM) is an emerging experimental method to characterize the structure of large biomolecular assemblies. Single particle cryo-EM records 2D images (so-called micrographs) of projections of the three-dimensional…

In this paper, the decades-old clustering method k-means is revisited. The original distortion minimization model of k-means is addressed by a pure stochastic minimization procedure. In each step of the iteration, one sample is tentatively…

Background: Single-particle cryo-electron microscopy (cryo-EM) has become a popular tool for structural determination of biological macromolecular complexes. High-resolution cryo-EM reconstruction often requires hundreds of thousands of…