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Dimension reduction techniques are among the most essential analytical tools in the analysis of high-dimensional data. Generalized principal component analysis (PCA) is an extension to standard PCA that has been widely used to identify low-dimensional features in high-dimensional discrete data, such as binary, multi-category and count data. For microbiome count data in particular, the multinomial PCA is a natural counterpart of the standard PCA. However, this technique fails to account for the excessive number of zero values, which is frequently observed in microbiome count data. To allow for sparsity, zero-inflated multivariate distributions can be used. We propose a zero-inflated probabilistic PCA model for latent factor analysis. The proposed model is a fully Bayesian factor analysis technique that is appropriate for microbiome count data analysis. In addition, we use the mean-field-type variational family to approximate the marginal likelihood and develop a classification variational approximation algorithm to fit the model. We demonstrate the efficiency of our procedure for predictions based on the latent factors and the model parameters through simulation experiments, showcasing its superiority over competing methods. This efficiency is further illustrated with two real microbiome count datasets. The method is implemented in R.

In many practical applications, evaluating the joint impact of combinations of environmental variables is important for risk management and structural design analysis. When such variables are considered simultaneously, non-stationarity can exist within both the marginal distributions and dependence structure, resulting in complex data structures. In the context of extremes, few methods have been proposed for modelling trends in extremal dependence, even though capturing this feature is important for quantifying joint impact. Moreover, most proposed techniques are only applicable to data structures exhibiting asymptotic dependence. Motivated by observed dependence trends of data from the UK Climate Projections, we propose a novel semi-parametric modelling framework for bivariate extremal dependence structures. This framework allows us to capture a wide variety of dependence trends for data exhibiting asymptotic independence. When applied to the climate projection dataset, our model detects significant dependence trends in observations and, in combination with models for marginal non-stationarity, can be used to produce estimates of bivariate risk measures at future time points.

Cross-validation is usually employed to evaluate the performance of a given statistical methodology. When such a methodology depends on a number of tuning parameters, cross-validation proves to be helpful to select the parameters that optimize the estimated performance. In this paper, however, a very different and nonstandard use of cross-validation is investigated. Instead of focusing on the cross-validated parameters, the main interest is switched to the estimated value of the error criterion at optimal performance. It is shown that this approach is able to provide consistent and efficient estimates of some density functionals, with the noteworthy feature that these estimates do not rely on the choice of any further tuning parameter, so that, in that sense, they can be considered to be purely empirical. Here, a base case of application of this new paradigm is developed in full detail, while many other possible extensions are hinted as well.

Generalized cross-validation (GCV) is a widely-used method for estimating the squared out-of-sample prediction risk that employs a scalar degrees of freedom adjustment (in a multiplicative sense) to the squared training error. In this paper, we examine the consistency of GCV for estimating the prediction risk of arbitrary ensembles of penalized least-squares estimators. We show that GCV is inconsistent for any finite ensemble of size greater than one. Towards repairing this shortcoming, we identify a correction that involves an additional scalar correction (in an additive sense) based on degrees of freedom adjusted training errors from each ensemble component. The proposed estimator (termed CGCV) maintains the computational advantages of GCV and requires neither sample splitting, model refitting, or out-of-bag risk estimation. The estimator stems from a finer inspection of the ensemble risk decomposition and two intermediate risk estimators for the components in this decomposition. We provide a non-asymptotic analysis of the CGCV and the two intermediate risk estimators for ensembles of convex penalized estimators under Gaussian features and a linear response model. Furthermore, in the special case of ridge regression, we extend the analysis to general feature and response distributions using random matrix theory, which establishes model-free uniform consistency of CGCV.

We study infinite-horizon average-reward Markov decision processes (AMDPs) in the context of general function approximation. Specifically, we propose a novel algorithmic framework named Local-fitted Optimization with OPtimism (LOOP), which incorporates both model-based and value-based incarnations. In particular, LOOP features a novel construction of confidence sets and a low-switching policy updating scheme, which are tailored to the average-reward and function approximation setting. Moreover, for AMDPs, we propose a novel complexity measure -- average-reward generalized eluder coefficient (AGEC) -- which captures the challenge of exploration in AMDPs with general function approximation. Such a complexity measure encompasses almost all previously known tractable AMDP models, such as linear AMDPs and linear mixture AMDPs, and also includes newly identified cases such as kernel AMDPs and AMDPs with Bellman eluder dimensions. Using AGEC, we prove that LOOP achieves a sublinear $\tilde{\mathcal{O}}(\mathrm{poly}(d, \mathrm{sp}(V^*)) \sqrt{T\beta} )$ regret, where $d$ and $\beta$ correspond to AGEC and log-covering number of the hypothesis class respectively, $\mathrm{sp}(V^*)$ is the span of the optimal state bias function, $T$ denotes the number of steps, and $\tilde{\mathcal{O}} (\cdot) $ omits logarithmic factors. When specialized to concrete AMDP models, our regret bounds are comparable to those established by the existing algorithms designed specifically for these special cases. To the best of our knowledge, this paper presents the first comprehensive theoretical framework capable of handling nearly all AMDPs.

We introduce a framework rooted in a rate distortion problem for Markov chains, and show how a suite of commonly used Markov Chain Monte Carlo (MCMC) algorithms are specific instances within it, where the target stationary distribution is controlled by the distortion function. Our approach offers a unified variational view on the optimality of algorithms such as Metropolis-Hastings, Glauber dynamics, the swapping algorithm and Feynman-Kac path models. Along the way, we analyze factorizability and geometry of multivariate Markov chains. Specifically, we demonstrate that induced chains on factors of a product space can be regarded as information projections with respect to a particular divergence. This perspective yields Han--Shearer type inequalities for Markov chains as well as applications in the context of large deviations and mixing time comparison.

The diversity optimization is the class of optimization problems, in which we aim at finding a diverse set of good solutions. One of the frequently used approaches to solve such problems is to use evolutionary algorithms which evolve a desired diverse population. This approach is called evolutionary diversity optimization (EDO). In this paper, we analyse EDO on a 3-objective function LOTZ$_k$, which is a modification of the 2-objective benchmark function (LeadingOnes, TrailingZeros). We prove that the GSEMO computes a set of all Pareto-optimal solutions in $O(kn^3)$ expected iterations. We also analyze the runtime of the GSEMO$_D$ (a modification of the GSEMO for diversity optimization) until it finds a population with the best possible diversity for two different diversity measures, the total imbalance and the sorted imbalances vector. For the first measure we show that the GSEMO$_D$ optimizes it asymptotically faster than it finds a Pareto-optimal population, in $O(kn^2\log(n))$ expected iterations, and for the second measure we show an upper bound of $O(k^2n^3\log(n))$ expected iterations. We complement our theoretical analysis with an empirical study, which shows a very similar behavior for both diversity measures that is close to the theory predictions.

Invariance against rotations of 3D objects is an important property in analyzing 3D point set data. Conventional 3D point set DNNs having rotation invariance typically obtain accurate 3D shape features via supervised learning by using labeled 3D point sets as training samples. However, due to the rapid increase in 3D point set data and the high cost of labeling, a framework to learn rotation-invariant 3D shape features from numerous unlabeled 3D point sets is required. This paper proposes a novel self-supervised learning framework for acquiring accurate and rotation-invariant 3D point set features at object-level. Our proposed lightweight DNN architecture decomposes an input 3D point set into multiple global-scale regions, called tokens, that preserve the spatial layout of partial shapes composing the 3D object. We employ a self-attention mechanism to refine the tokens and aggregate them into an expressive rotation-invariant feature per 3D point set. Our DNN is effectively trained by using pseudo-labels generated by a self-distillation framework. To facilitate the learning of accurate features, we propose to combine multi-crop and cut-mix data augmentation techniques to diversify 3D point sets for training. Through a comprehensive evaluation, we empirically demonstrate that, (1) existing rotation-invariant DNN architectures designed for supervised learning do not necessarily learn accurate 3D shape features under a self-supervised learning scenario, and (2) our proposed algorithm learns rotation-invariant 3D point set features that are more accurate than those learned by existing algorithms. Code is available at //github.com/takahikof/RIPT_SDMM

Quantized tensor trains (QTTs) have recently emerged as a framework for the numerical discretization of continuous functions, with the potential for widespread applications in numerical analysis. However, the theory of QTT approximation is not fully understood. In this work, we advance this theory from the point of view of multiscale polynomial interpolation. This perspective clarifies why QTT ranks decay with increasing depth, quantitatively controls QTT rank in terms of smoothness of the target function, and explains why certain functions with sharp features and poor quantitative smoothness can still be well approximated by QTTs. The perspective also motivates new practical and efficient algorithms for the construction of QTTs from function evaluations on multiresolution grids.

Human-in-the-loop aims to train an accurate prediction model with minimum cost by integrating human knowledge and experience. Humans can provide training data for machine learning applications and directly accomplish some tasks that are hard for computers in the pipeline with the help of machine-based approaches. In this paper, we survey existing works on human-in-the-loop from a data perspective and classify them into three categories with a progressive relationship: (1) the work of improving model performance from data processing, (2) the work of improving model performance through interventional model training, and (3) the design of the system independent human-in-the-loop. Using the above categorization, we summarize major approaches in the field, along with their technical strengths/ weaknesses, we have simple classification and discussion in natural language processing, computer vision, and others. Besides, we provide some open challenges and opportunities. This survey intends to provide a high-level summarization for human-in-the-loop and motivates interested readers to consider approaches for designing effective human-in-the-loop solutions.