In high-dimension, low-sample size (HDLSS) data, it is not always true that closeness of two objects reflects a hidden cluster structure. We point out the important fact that it is not the closeness, but the "values" of distance that contain information of the cluster structure in high-dimensional space. Based on this fact, we propose an efficient and simple clustering approach, called distance vector clustering, for HDLSS data. Under the assumptions given in the work of Hall et al. (2005), we show the proposed approach provides a true cluster label under milder conditions when the dimension tends to infinity with the sample size fixed. The effectiveness of the distance vector clustering approach is illustrated through a numerical experiment and real data analysis.

Let G=(V,E) be an undirected graph, lambda_k be the k-th smallest eigenvalue of the normalized laplacian matrix of G. There is a basic fact in algebraic graph theory that lambda_k > 0 if and only if G has at most k-1 connected components. We prove a robust version of this fact. If lambda_k>0, then for some 1\leq \ell\leq k-1, V can be {\em partitioned} into l sets P_1,\ldots,P_l such that each P_i is a low-conductance set in G and induces a high conductance induced subgraph. In particular, \phi(P_i)=O(l^3\sqrt{\lambda_l}) and \phi(G[P_i]) >= \lambda_k/k^2). We make our results algorithmic by designing a simple polynomial time spectral algorithm to find such partitioning of G with a quadratic loss in the inside conductance of P_i's. Unlike the recent results on higher order Cheeger's inequality [LOT12,LRTV12], our algorithmic results do not use higher order eigenfunctions of G. If there is a sufficiently large gap between lambda_k and lambda_{k+1}, more precisely, if \lambda_{k+1} >= \poly(k) lambda_{k}^{1/4} then our algorithm finds a k partitioning of V into sets P_1,...,P_k such that the induced subgraph G[P_i] has a significantly larger conductance than the conductance of P_i in G. Such a partitioning may represent the best k clustering of G. Our algorithm is a simple local search that only uses the Spectral Partitioning algorithm as a subroutine. We expect to see further applications of this simple algorithm in clustering applications.

Community detection in networks is a key exploratory tool with applications in a diverse set of areas, ranging from finding communities in social and biological networks to identifying link farms in the World Wide Web. The problem of finding communities or clusters in a network has received much attention from statistics, physics and computer science. However, most clustering algorithms assume knowledge of the number of clusters k. In this paper we propose to automatically determine k in a graph generated from a Stochastic Blockmodel. Our main contribution is twofold; first, we theoretically establish the limiting distribution of the principal eigenvalue of the suitably centered and scaled adjacency matrix, and use that distribution for our hypothesis test. Secondly, we use this test to design a recursive bipartitioning algorithm. Using quantifiable classification tasks on real world networks with ground truth, we show that our algorithm outperforms existing probabilistic models for learning overlapping clusters, and on unlabeled networks, we show that we uncover nested community structure.

Motivated by applications of large-scale graph clustering, we study random-walk-based LOCAL algorithms whose running times depend only on the size of the output cluster, rather than the entire graph. All previously known such algorithms guarantee an output conductance of $\tilde{O}(\sqrt{\phi(A)})$ when the target set $A$ has conductance $\phi(A)\in[0,1]$. In this paper, we improve it to $$\tilde{O}\bigg( \min\Big\{\sqrt{\phi(A)}, \frac{\phi(A)}{\sqrt{\mathsf{Conn}(A)}} \Big\} \bigg)\enspace, $$ where the internal connectivity parameter $\mathsf{Conn}(A) \in [0,1]$ is defined as the reciprocal of the mixing time of the random walk over the induced subgraph on $A$. For instance, using $\mathsf{Conn}(A) = \Omega(\lambda(A) / \log n)$ where $\lambda$ is the second eigenvalue of the Laplacian of the induced subgraph on $A$, our conductance guarantee can be as good as $\tilde{O}(\phi(A)/\sqrt{\lambda(A)})$. This builds an interesting connection to the recent advance of the so-called improved Cheeger's Inequality [KKL+13], which says that global spectral algorithms can provide a conductance guarantee of $O(\phi_{\mathsf{opt}}/\sqrt{\lambda_3})$ instead of $O(\sqrt{\phi_{\mathsf{opt}}})$. In addition, we provide theoretical guarantee on the clustering accuracy (in terms of precision and recall) of the output set. We also prove that our analysis is tight, and perform empirical evaluation to support our theory on both synthetic and real data. It is worth noting that, our analysis outperforms prior work when the cluster is well-connected. In fact, the better it is well-connected inside, the more significant improvement (both in terms of conductance and accuracy) we can obtain. Our results shed light on why in practice some random-walk-based algorithms perform better than its previous theory, and help guide future research about local clustering.

The power of human computation is founded on the capabilities of humans to process qualitative information in a manner that is hard to reproduce with a computer. However, all machine learning algorithms rely on mathematical operations, such as sums, averages, least squares etc. that are less suitable for human computation. This paper is an effort to combine these two aspects of data processing. We consider the problem of computing a centroid of a data set, a key component in many data-analysis applications such as clustering, using a very simple human intelligence task (HIT). In this task the workers must choose the outlier from a set of three items. After presenting a number of such triplets to the workers, the item chosen the least number of times as the outlier is selected as the centroid. We provide a proof that the centroid determined by this procedure is equal the mean of a univariate normal distribution. Furthermore, as a demonstration of the viability of our method, we implement a human computation based variant of the k-means clustering algorithm. We present experiments where the proposed method is used to find an "average" image in a collection, and cluster images to semantic categories.

Many algorithms have been proposed for fitting network models with communities, but most of them do not scale well to large networks, and often fail on sparse networks. Here we propose a new fast pseudo-likelihood method for fitting the stochastic block model for networks, as well as a variant that allows for an arbitrary degree distribution by conditioning on degrees. We show that the algorithms perform well under a range of settings, including on very sparse networks, and illustrate on the example of a network of political blogs. We also propose spectral clustering with perturbations, a method of independent interest, which works well on sparse networks where regular spectral clustering fails, and use it to provide an initial value for pseudo-likelihood. We prove that pseudo-likelihood provides consistent estimates of the communities under a mild condition on the starting value, for the case of a block model with two communities.

High-throughput sequencing allows the detection and quantification of frequencies of somatic single nucleotide variants (SNV) in heterogeneous tumor cell populations. In some cases, the evolutionary history and population frequency of the subclonal lineages of tumor cells present in the sample can be reconstructed from these SNV frequency measurements. However, automated methods to do this reconstruction are not available and the conditions under which reconstruction is possible have not been described. We describe the conditions under which the evolutionary history can be uniquely reconstructed from SNV frequencies from single or multiple samples from the tumor population and we introduce a new statistical model, PhyloSub, that infers the phylogeny and genotype of the major subclonal lineages represented in the population of cancer cells. It uses a Bayesian nonparametric prior over trees that groups SNVs into major subclonal lineages and automatically estimates the number of lineages and their ancestry. We sample from the joint posterior distribution over trees to identify evolutionary histories and cell population frequencies that have the highest probability of generating the observed SNV frequency data. When multiple phylogenies are consistent with a given set of SNV frequencies, PhyloSub represents the uncertainty in the tumor phylogeny using a partial order plot. Experiments on a simulated dataset and two real datasets comprising tumor samples from acute myeloid leukemia and chronic lymphocytic leukemia patients demonstrate that PhyloSub can infer both linear (or chain) and branching lineages and its inferences are in good agreement with ground truth, where it is available.

This paper presents a novel algorithm, based upon the dependent Dirichlet process mixture model (DDPMM), for clustering batch-sequential data containing an unknown number of evolving clusters. The algorithm is derived via a low-variance asymptotic analysis of the Gibbs sampling algorithm for the DDPMM, and provides a hard clustering with convergence guarantees similar to those of the k-means algorithm. Empirical results from a synthetic test with moving Gaussian clusters and a test with real ADS-B aircraft trajectory data demonstrate that the algorithm requires orders of magnitude less computational time than contemporary probabilistic and hard clustering algorithms, while providing higher accuracy on the examined datasets.

This paper provides new algorithms for distributed clustering for two popular center-based objectives, k-median and k-means. These algorithms have provable guarantees and improve communication complexity over existing approaches. Following a classic approach in clustering by \cite{har2004coresets}, we reduce the problem of finding a clustering with low cost to the problem of finding a coreset of small size. We provide a distributed method for constructing a global coreset which improves over the previous methods by reducing the communication complexity, and which works over general communication topologies. Experimental results on large scale data sets show that this approach outperforms other coreset-based distributed clustering algorithms.

Given a subset S of vertices of an undirected graph G, the cut-improvement problem asks us to find a subset S that is similar to A but has smaller conductance. A very elegant algorithm for this problem has been given by Andersen and Lang [AL08] and requires solving a small number of single-commodity maximum flow computations over the whole graph G. In this paper, we introduce LocalImprove, the first cut-improvement algorithm that is local, i.e. that runs in time dependent on the size of the input set A rather than on the size of the entire graph. Moreover, LocalImprove achieves this local behaviour while essentially matching the same theoretical guarantee as the global algorithm of Andersen and Lang. The main application of LocalImprove is to the design of better local-graph-partitioning algorithms. All previously known local algorithms for graph partitioning are random-walk based and can only guarantee an output conductance of O(\sqrt{OPT}) when the target set has conductance OPT \in [0,1]. Very recently, Zhu, Lattanzi and Mirrokni [ZLM13] improved this to O(OPT / \sqrt{CONN}) where the internal connectivity parameter CONN \in [0,1] is defined as the reciprocal of the mixing time of the random walk over the graph induced by the target set. In this work, we show how to use LocalImprove to obtain a constant approximation O(OPT) as long as CONN/OPT = Omega(1). This yields the first flow-based algorithm. Moreover, its performance strictly outperforms the ones based on random walks and surprisingly matches that of the best known global algorithm, which is SDP-based, in this parameter regime [MMV12]. Finally, our results show that spectral methods are not the only viable approach to the construction of local graph partitioning algorithm and open door to the study of algorithms with even better approximation and locality guarantees.