Biclustering is the task of simultaneously clustering the rows and columns of the data matrix into different subgroups such that the rows and columns within a subgroup exhibit similar patterns. In this paper, we consider the case of producing block-diagonal biclusters. We provide a new formulation of the biclustering problem based on the idea of minimizing the empirical clustering risk. We develop and prove a consistency result with respect to the empirical clustering risk. Since the optimization problem is combinatorial in nature, finding the global minimum is computationally intractable. In light of this fact, we propose a simple and novel algorithm that finds a local minimum by alternating the use of an adapted version of the k-means clustering algorithm between columns and rows. We evaluate and compare the performance of our algorithm to other related biclustering methods on both simulated data and real-world gene expression data sets. The results demonstrate that our algorithm is able to detect meaningful structures in the data and outperform other competing biclustering methods in various settings and situations.
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Understanding the movement of animals is crucial to conservation efforts. Past research often focuses on factors affecting movement, rather than locations of interest that animals return to or habitat. We explore the use of clustering to identify locations of interest to African Elephants in regions of Sub-Saharan Africa. Our analysis was performed using publicly available datasets for tracking African elephants at Kruger National Park (KNP), South Africa; Etosha National Park, Namibia; as well as areas in Burkina Faso and the Congo. Using the DBSCAN and KMeans clustering algorithms, we calculate clusters and centroids to simplify elephant movement data and highlight important locations of interest. Through a comparison of feature spaces with and without temperature, we show that temperature is an important feature to explain movement clustering. Recognizing the importance of temperature, we develop a technique to add external temperature data from an API to other geospatial datasets that would otherwise not have temperature data. After addressing the hurdles of using external data with marginally different timestamps, we consider the quality of this data, and the quality of the centroids of the clusters calculated based on this external temperature data. Finally, we overlay these centroids onto satellite imagery and locations of human settlements to validate the real-life applications of the calculated centroids to identify locations of interest for elephants. As expected, we confirmed that elephants tend to cluster their movement around sources of water as well as some human settlements, especially those with water holes. Identifying key locations of interest for elephants is beneficial in predicting the movement of elephants and preventing poaching. These methods may in the future be applied to other animals beyond elephants to identify locations of interests for them.
In clustering problems, a central decision-maker is given a complete metric graph over vertices and must provide a clustering of vertices that minimizes some objective function. In fair clustering problems, vertices are endowed with a color (e.g., membership in a group), and the features of a valid clustering might also include the representation of colors in that clustering. Prior work in fair clustering assumes complete knowledge of group membership. In this paper, we generalize prior work by assuming imperfect knowledge of group membership through probabilistic assignments. We present clustering algorithms in this more general setting with approximation ratio guarantees. We also address the problem of "metric membership", where different groups have a notion of order and distance. Experiments are conducted using our proposed algorithms as well as baselines to validate our approach and also surface nuanced concerns when group membership is not known deterministically.
The fuzzy or soft $k$-means objective is a popular generalization of the well-known $k$-means problem, extending the clustering capability of the $k$-means to datasets that are uncertain, vague, and otherwise hard to cluster. In this paper, we propose a semi-supervised active clustering framework, where the learner is allowed to interact with an oracle (domain expert), asking for the similarity between a certain set of chosen items. We study the query and computational complexities of clustering in this framework. We prove that having a few of such similarity queries enables one to get a polynomial-time approximation algorithm to an otherwise conjecturally NP-hard problem. In particular, we provide algorithms for fuzzy clustering in this setting that asks $O(\mathsf{poly}(k)\log n)$ similarity queries and run with polynomial-time-complexity, where $n$ is the number of items. The fuzzy $k$-means objective is nonconvex, with $k$-means as a special case, and is equivalent to some other generic nonconvex problem such as non-negative matrix factorization. The ubiquitous Lloyd-type algorithms (or alternating minimization algorithms) can get stuck at a local minimum. Our results show that by making a few similarity queries, the problem becomes easier to solve. Finally, we test our algorithms over real-world datasets, showing their effectiveness in real-world applications.
In this paper, we propose a one-stage online clustering method called Contrastive Clustering (CC) which explicitly performs the instance- and cluster-level contrastive learning. To be specific, for a given dataset, the positive and negative instance pairs are constructed through data augmentations and then projected into a feature space. Therein, the instance- and cluster-level contrastive learning are respectively conducted in the row and column space by maximizing the similarities of positive pairs while minimizing those of negative ones. Our key observation is that the rows of the feature matrix could be regarded as soft labels of instances, and accordingly the columns could be further regarded as cluster representations. By simultaneously optimizing the instance- and cluster-level contrastive loss, the model jointly learns representations and cluster assignments in an end-to-end manner. Extensive experimental results show that CC remarkably outperforms 17 competitive clustering methods on six challenging image benchmarks. In particular, CC achieves an NMI of 0.705 (0.431) on the CIFAR-10 (CIFAR-100) dataset, which is an up to 19\% (39\%) performance improvement compared with the best baseline.
Recently, many unsupervised deep learning methods have been proposed to learn clustering with unlabelled data. By introducing data augmentation, most of the latest methods look into deep clustering from the perspective that the original image and its tansformation should share similar semantic clustering assignment. However, the representation features before softmax activation function could be quite different even the assignment probability is very similar since softmax is only sensitive to the maximum value. This may result in high intra-class diversities in the representation feature space, which will lead to unstable local optimal and thus harm the clustering performance. By investigating the internal relationship between mutual information and contrastive learning, we summarized a general framework that can turn any maximizing mutual information into minimizing contrastive loss. We apply it to both the semantic clustering assignment and representation feature and propose a novel method named Deep Robust Clustering by Contrastive Learning (DRC). Different to existing methods, DRC aims to increase inter-class diver-sities and decrease intra-class diversities simultaneously and achieve more robust clustering results. Extensive experiments on six widely-adopted deep clustering benchmarks demonstrate the superiority of DRC in both stability and accuracy. e.g., attaining 71.6% mean accuracy on CIFAR-10, which is 7.1% higher than state-of-the-art results.
Spectral clustering (SC) is a popular clustering technique to find strongly connected communities on a graph. SC can be used in Graph Neural Networks (GNNs) to implement pooling operations that aggregate nodes belonging to the same cluster. However, the eigendecomposition of the Laplacian is expensive and, since clustering results are graph-specific, pooling methods based on SC must perform a new optimization for each new sample. In this paper, we propose a graph clustering approach that addresses these limitations of SC. We formulate a continuous relaxation of the normalized minCUT problem and train a GNN to compute cluster assignments that minimize this objective. Our GNN-based implementation is differentiable, does not require to compute the spectral decomposition, and learns a clustering function that can be quickly evaluated on out-of-sample graphs. From the proposed clustering method, we design a graph pooling operator that overcomes some important limitations of state-of-the-art graph pooling techniques and achieves the best performance in several supervised and unsupervised tasks.
Clustering is one of the most fundamental and wide-spread techniques in exploratory data analysis. Yet, the basic approach to clustering has not really changed: a practitioner hand-picks a task-specific clustering loss to optimize and fit the given data to reveal the underlying cluster structure. Some types of losses---such as k-means, or its non-linear version: kernelized k-means (centroid based), and DBSCAN (density based)---are popular choices due to their good empirical performance on a range of applications. Although every so often the clustering output using these standard losses fails to reveal the underlying structure, and the practitioner has to custom-design their own variation. In this work we take an intrinsically different approach to clustering: rather than fitting a dataset to a specific clustering loss, we train a recurrent model that learns how to cluster. The model uses as training pairs examples of datasets (as input) and its corresponding cluster identities (as output). By providing multiple types of training datasets as inputs, our model has the ability to generalize well on unseen datasets (new clustering tasks). Our experiments reveal that by training on simple synthetically generated datasets or on existing real datasets, we can achieve better clustering performance on unseen real-world datasets when compared with standard benchmark clustering techniques. Our meta clustering model works well even for small datasets where the usual deep learning models tend to perform worse.
The availability of large microarray data has led to a growing interest in biclustering methods in the past decade. Several algorithms have been proposed to identify subsets of genes and conditions according to different similarity measures and under varying constraints. In this paper we focus on the exclusive row biclustering problem for gene expression data sets, in which each row can only be a member of a single bicluster while columns can participate in multiple ones. This type of biclustering may be adequate, for example, for clustering groups of cancer patients where each patient (row) is expected to be carrying only a single type of cancer, while each cancer type is associated with multiple (and possibly overlapping) genes (columns). We present a novel method to identify these exclusive row biclusters through a combination of existing biclustering algorithms and combinatorial auction techniques. We devise an approach for tuning the threshold for our algorithm based on comparison to a null model in the spirit of the Gap statistic approach. We demonstrate our approach on both synthetic and real-world gene expression data and show its power in identifying large span non-overlapping rows sub matrices, while considering their unique nature. The Gap statistic approach succeeds in identifying appropriate thresholds in all our examples.
Generative Adversarial networks (GANs) have obtained remarkable success in many unsupervised learning tasks and unarguably, clustering is an important unsupervised learning problem. While one can potentially exploit the latent-space back-projection in GANs to cluster, we demonstrate that the cluster structure is not retained in the GAN latent space. In this paper, we propose ClusterGAN as a new mechanism for clustering using GANs. By sampling latent variables from a mixture of one-hot encoded variables and continuous latent variables, coupled with an inverse network (which projects the data to the latent space) trained jointly with a clustering specific loss, we are able to achieve clustering in the latent space. Our results show a remarkable phenomenon that GANs can preserve latent space interpolation across categories, even though the discriminator is never exposed to such vectors. We compare our results with various clustering baselines and demonstrate superior performance on both synthetic and real datasets.
A recommender system aims to recommend items that a user is interested in among many items. The need for the recommender system has been expanded by the information explosion. Various approaches have been suggested for providing meaningful recommendations to users. One of the proposed approaches is to consider a recommender system as a Markov decision process (MDP) problem and try to solve it using reinforcement learning (RL). However, existing RL-based methods have an obvious drawback. To solve an MDP in a recommender system, they encountered a problem with the large number of discrete actions that bring RL to a larger class of problems. In this paper, we propose a novel RL-based recommender system. We formulate a recommender system as a gridworld game by using a biclustering technique that can reduce the state and action space significantly. Using biclustering not only reduces space but also improves the recommendation quality effectively handling the cold-start problem. In addition, our approach can provide users with some explanation why the system recommends certain items. Lastly, we examine the proposed algorithm on a real-world dataset and achieve a better performance than the widely used recommendation algorithm.
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