Traditional principal component analysis (PCA) is well known in high-dimensional data analysis, but it requires to express data by a matrix with observations to be continuous. To overcome the limitations, a new method called flexible PCA (FPCA) for exponential family distributions is proposed. The goal is to ensure that it can be implemented to arbitrary shaped region for either count or continuous observations. The methodology of FPCA is developed under the framework of generalized linear models. It provides statistical models for FPCA not limited to matrix expressions of the data. A maximum likelihood approach is proposed to derive the decomposition when the number of principal components (PCs) is known. This naturally induces a penalized likelihood approach to determine the number of PCs when it is unknown. By modifying it for missing data problems, the proposed method is compared with previous PCA methods for missing data. The simulation study shows that the performance of FPCA is always better than its competitors. The application uses the proposed method to reduce the dimensionality of arbitrary shaped sub-regions of images and the global spread patterns of COVID-19 under normal and Poisson distributions, respectively.
Many applications, such as photon-limited imaging and genomics, involve large datasets with noisy entries from exponential family distributions. It is of interest to estimate the covariance structure and principal components of the noiseless distribution. Principal Component Analysis (PCA), the standard method for this setting, can be inefficient when the noise is non-Gaussian. We develop $e$PCA (exponential family PCA), a new methodology for PCA on exponential family distributions. $e$PCA can be used for dimensionality reduction and denoising of large data matrices. $e$PCA involves the eigend…
Existing approaches for multivariate functional principal component analysis are restricted to data on the same one-dimensional interval. The presented approach focuses on multivariate functional data on different domains that may differ in dimension, e.g. functions and images. The theoretical basis for multivariate functional principal component analysis is given in terms of a Karhunen-Loève Theorem. For the practically relevant case of a finite Karhunen-Loève representation, a relationship between univariate and multivariate functional principal component analysis is established. This offers…
We present a new straightforward principal component analysis (PCA) method based on the diagonalization of the weighted variance-covariance matrix through two spectral decomposition methods: power iteration and Rayleigh quotient iteration. This method allows one to retrieve a given number of orthogonal principal components amongst the most meaningful ones for the case of problems with weighted and/or missing data. Principal coefficients are then retrieved by fitting principal components to the data while providing the final decomposition. Tests performed on real and simulated cases show that o…
This paper introduces a Projected Principal Component Analysis (Projected-PCA), which employs principal component analysis to the projected (smoothed) data matrix onto a given linear space spanned by covariates. When it applies to high-dimensional factor analysis, the projection removes noise components. We show that the unobserved latent factors can be more accurately estimated than the conventional PCA if the projection is genuine, or more precisely, when the factor loading matrices are related to the projected linear space. When the dimensionality is large, the factors can be estimated accu…
Even with the rise in popularity of over-parameterized models, simple dimensionality reduction and clustering methods, such as PCA and k-means, are still routinely used in an amazing variety of settings. A primary reason is the combination of simplicity, interpretability and computational efficiency. The focus of this article is on improving upon PCA and k-means, by allowing non-linear relations in the data and more flexible cluster shapes, without sacrificing the key advantages. The key contribution is a new framework for Principal Elliptical Analysis (PEA), defining a simple and computationa…
Mitsubishi Electric Research Laboratories（三菱电机研究实验室）
We propose a new concept of rateless auto-encoders (RL-AEs) that enable a flexible latent dimensionality, which can be seamlessly adjusted for varying distortion and dimensionality requirements. In the proposed RL-AEs, instead of a deterministic bottleneck architecture, we use an over-complete representation that is stochastically regularized with weighted dropouts, in a manner analogous to sparse AE (SAE). Unlike SAEs, our RL-AEs employ monotonically increasing dropout rates across the latent representation nodes such that the latent variables become sorted by importance like in principal com…
Compositional data are multivariate observations that carry only relative information between components. Applying standard multivariate statistical methodology directly to analyze compositional data can lead to paradoxes and misinterpretations. Compositional data also frequently appear in insurance, especially with telematics information. However, such type of data does not receive deserved special treatment in most existing actuarial literature. In this paper, we explore and investigate the use of exponential family principal component analysis (EPCA) to analyze compositional data in insuran…
UC Berkeley（加州大学伯克利分校）；University of Washington（华盛顿大学）
Sparse principal component analysis (SPCA) has emerged as a powerful technique for modern data analysis, providing improved interpretation of low-rank structures by identifying localized spatial structures in the data and disambiguating between distinct time scales. We demonstrate a robust and scalable SPCA algorithm by formulating it as a value-function optimization problem. This viewpoint leads to a flexible and computationally efficient algorithm. Further, we can leverage randomized methods from linear algebra to extend the approach to the large-scale (big data) setting. Our proposed innova…
We propose a new high dimensional semiparametric principal component analysis (PCA) method, named Copula Component Analysis (COCA). The semiparametric model assumes that, after unspecified marginally monotone transformations, the distributions are multivariate Gaussian. COCA improves upon PCA and sparse PCA in three aspects: (i) It is robust to modeling assumptions; (ii) It is robust to outliers and data contamination; (iii) It is scale-invariant and yields more interpretable results. We prove that the COCA estimators obtain fast estimation rates and are feature selection consistent when the d…
We present Matrix Krasulina, an algorithm for online k-PCA, by generalizing the classic Krasulina's method (Krasulina, 1969) from vector to matrix case. We show, both theoretically and empirically, that the algorithm naturally adapts to data low-rankness and converges exponentially fast to the ground-truth principal subspace. Notably, our result suggests that despite various recent efforts to accelerate the convergence of stochastic-gradient based methods by adding a O(n)-time variance reduction step, for the k-PCA problem, a truly online SGD variant suffices to achieve exponential convergence…
We consider the problem of constructing nonparametric undirected graphical models for high-dimensional functional data. Most existing statistical methods in this context assume either a Gaussian distribution on the vertices or linear conditional means. In this article we provide a more flexible model which relaxes the linearity assumption by replacing it by an arbitrary additive form. The use of functional principal components offers an estimation strategy that uses a group lasso penalty to estimate the relevant edges of the graph. We establish statistical guarantees for the resulting estimato…
Regularized variants of Principal Components Analysis, especially Sparse PCA and Functional PCA, are among the most useful tools for the analysis of complex high-dimensional data. Many examples of massive data, have both sparse and functional (smooth) aspects and may benefit from a regularization scheme that can capture both forms of structure. For example, in neuro-imaging data, the brain's response to a stimulus may be restricted to a discrete region of activation (spatial sparsity), while exhibiting a smooth response within that region. We propose a unified approach to regularized PCA which…
Accurate predictions of pollutant concentrations at new locations are often of interest in air pollution studies on fine particulate matters (PM$_{2.5}$), in which data is usually not measured at all study locations. PM$_{2.5}$ is also a mixture of many different chemical components. Principal component analysis (PCA) can be incorporated to obtain lower-dimensional representative scores of such multi-pollutant data. Spatial prediction can then be used to estimate these scores at new locations. Recently developed predictive PCA modifies the traditional PCA algorithm to obtain scores with spatia…
Functional data analysis on nonlinear manifolds has drawn recent interest. Sphere-valued functional data, which are encountered for example as movement trajectories on the surface of the earth, are an important special case. We consider an intrinsic principal component analysis for smooth Riemannian manifold-valued functional data and study its asymptotic properties. Riemannian functional principal component analysis (RFPCA) is carried out by first mapping the manifold-valued data through Riemannian logarithm maps to tangent spaces around the time-varying Fréchet mean function, and then perfor…
University of Sheffield（谢菲尔德大学）；Sheffield Institute for Translational Neuroscience（谢菲尔德转化神经科学研究所）
Probabilistic principal component analysis (PPCA) seeks a low dimensional representation of a data set in the presence of independent spherical Gaussian noise. The maximum likelihood solution for the model is an eigenvalue problem on the sample covariance matrix. In this paper we consider the situation where the data variance is already partially explained by other actors, for example sparse conditional dependencies between the covariates, or temporal correlations leaving some residual variance. We decompose the residual variance into its components through a generalised eigenvalue problem, wh…
We propose networked exponential families to jointly leverage the information in the topology as well as the attributes (features) of networked data points. Networked exponential families are a flexible probabilistic model for heterogeneous datasets with intrinsic network structure. These models can be learnt efficiently using network Lasso which implicitly pools or clusters the data points according to the intrinsic network structure and the local likelihood. The resulting method can be formulated as a non-smooth convex optimization problem which we solve using a primal-dual splitting method.…
Principal Component Analysis (PCA) is a dimension reduction technique. It produces inconsistent estimators when the dimensionality is moderate to high, which is often the problem in modern large-scale applications where algorithm scalability and model interpretability are difficult to achieve, not to mention the prevalence of missing values. While existing sparse PCA methods alleviate inconsistency, they are constrained to the Gaussian assumption of classical PCA and fail to address algorithm scalability issues. We generalize sparse PCA to the broad exponential family distributions under high-…
National University of Singapore（新加坡国立大学）；Academy of Mathematics and Systems Science, Chinese Academy of Sciences（中国科学院数学与系统科学研究院）；Tencent（腾讯）
In this paper, we study the problem of principal component analysis with generative modeling assumptions, adopting a general model for the observed matrix that encompasses notable special cases, including spiked matrix recovery and phase retrieval. The key assumption is that the underlying signal lies near the range of an $L$-Lipschitz continuous generative model with bounded $k$-dimensional inputs. We propose a quadratic estimator, and show that it enjoys a statistical rate of order $\sqrt{\frac{k\log L}{m}}$, where $m$ is the number of samples. We also provide a near-matching algorithm-indep…
University of Granada（格拉纳达大学）；Simula Metropolitan Center for Digital Engineering（Simula大都会数字工程中心）；University of Copenhagen（哥本哈根大学）
Matrix factorization methods are extensively employed to understand complex data. In this paper, we introduce the cross-product penalized component analysis (XCAN), a sparse matrix factorization based on the optimization of a loss function that allows a trade-off between variance maximization and structural preservation. The approach is based on previous developments, notably (i) the Sparse Principal Component Analysis (SPCA) framework based on the LASSO, (ii) extensions of SPCA to constrain both modes of the factorization, like co-clustering or the Penalized Matrix Decomposition (PMD), and (i…
Sparse PCA provides a linear combination of small number of features that maximizes variance across data. Although Sparse PCA has apparent advantages compared to PCA, such as better interpretability, it is generally thought to be computationally much more expensive. In this paper, we demonstrate the surprising fact that sparse PCA can be easier than PCA in practice, and that it can be reliably applied to very large data sets. This comes from a rigorous feature elimination pre-processing result, coupled with the favorable fact that features in real-life data typically have exponentially decreas…
In most domains of network analysis researchers consider networks that arise in nature with weighted edges. Such networks are routinely dichotomized in the interest of using available methods for statistical inference with networks. The generalized exponential random graph model (GERGM) is a recently proposed method used to simulate and model the edges of a weighted graph. The GERGM specifies a joint distribution for an exponential family of graphs with continuous-valued edge weights. However, current estimation algorithms for the GERGM only allow inference on a restricted family of model spec…
In biomedical studies it is common to collect data on multiple biomarkers during study follow-up for dynamic prediction of a time-to-event clinical outcome. The biomarkers are typically intermittently measured, missing at some event times, and may be subject to high biological variations, which cannot be readily used as time-dependent covariates in a standard time-to-event model. Moreover, they can be highly correlated if they are from in the same biological pathway. To address these issues, we propose a flexible joint model framework that models the multiple biomarkers with a shared latent re…
In recent years microbiome studies have become increasingly prevalent and large-scale. Through high-throughput sequencing technologies and well-established analytical pipelines, relative abundance data of operational taxonomic units and their associated taxonomic structures are routinely produced. Since such data can be extremely sparse and high dimensional, there is often a genuine need for dimension reduction to facilitate data visualization and downstream statistical analysis. We propose Principal Amalgamation Analysis (PAA), a novel amalgamation-based and taxonomy-guided dimension reductio…
Studies that collect multi-outcome data such as tobacco and alcohol use are becoming increasingly common. In principle, multi-outcomes studies investigate the correlations between outcomes, including, causal links and/or joint distributions. Although there are many methods for studying multivariate outcomes, significant limitations regarding scale and interpretation persist. Here we introduce a model based on the exponential-family for discrete binary outcomes that provides a flexible framework for hypothesis testing of multiple binary outcomes in a computationally efficient fashion.
In this study, we propose a function-on-function linear quantile regression model that allows for more than one functional predictor to establish a more flexible and robust approach. The proposed model is first transformed into a finite-dimensional space via the functional principal component analysis paradigm in the estimation phase. It is then approximated using the estimated functional principal component functions, and the estimated parameter of the quantile regression model is constructed based on the principal component scores. In addition, we propose a Bayesian information criterion to …
In this paper, we introduce a new distribution generated by Lindley random variable which offers a more flexible model for modelling lifetime data. Various statistical properties like distribution function, survival function, moments, entropy, and limiting distribution of extreme order statistics are established. Inference for a random sample from the proposed distribution is investigated and maximum likelihood estimation method is used for estimating parameters of this distribution. The applicability of the proposed distribution is shown through real data sets.
We introduce the beta generalized exponential distribution that includes the beta exponential and generalized exponential distributions as special cases. We provide a comprehensive mathematical treatment of this distribution. We derive the moment generating function and the $r$th moment thus generalizing some results in the literature. Expressions for the density, moment generating function and $r$th moment of the order statistics also are obtained. We discuss estimation of the parameters by maximum likelihood and provide the information matrix. We observe in one application to real data set t…
State space modelling is an efficient and flexible method for statistical inference of a broad class of time series and other data. This paper describes an R package KFAS for state space modelling with the observations from an exponential family, namely Gaussian, Poisson, binomial, negative binomial and gamma distributions. After introducing the basic theory behind Gaussian and non-Gaussian state space models, an illustrative example of Poisson time series forecasting is provided. Finally, a comparison to alternative R packages suitable for non-Gaussian time series modelling is presented.
In this paper we develop a bivariate discrete generalized exponential distribution, whose marginals are discrete generalized exponential distribution as proposed by Nekoukhou, Alamatsaz and Bidram ("Discrete generalized exponential distribution of a second type", Statistics, 47, 876 - 887, 2013). It is observed that the proposed bivariate distribution is a very flexible distribution and the bivariate geometric distribution can be obtained as a special case of this distribution. The proposed distribution can be seen as a natural discrete analogue of the bivariate generalized exponential distrib…
The cluster-weighted model (CWM) is a mixture model with random covariates which allows for flexible clustering and density estimation of a random vector composed by a response variable and by a set of covariates. In this class of models, the generalized linear exponential CWM is here introduced especially for modeling bivariate data of mixed-type. Its natural counterpart, in the family of latent class models, is also defined. Maximum likelihood parameter estimates are derived using the EM algorithm and model selection is carried out using the Bayesian information criterion (BIC). Artificial a…
