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When the dimension of data is comparable to or larger than the number of data samples, Principal Components Analysis (PCA) may exhibit problematic high-dimensional noise. In this work, we propose an Empirical Bayes PCA method that reduces this noise by estimating a joint prior distribution for the principal components. EB-PCA is based on the classical Kiefer-Wolfowitz nonparametric MLE for empirical Bayes estimation, distributional results derived from random matrix theory for the sample PCs, and iterative refinement using an Approximate Message Passing (AMP) algorithm. In theoretical "spiked" models, EB-PCA achieves Bayes-optimal estimation accuracy in the same settings as an oracle Bayes AMP procedure that knows the true priors. Empirically, EB-PCA significantly improves over PCA when there is strong prior structure, both in simulation and on quantitative benchmarks constructed from the 1000 Genomes Project and the International HapMap Project. An illustration is presented for analysis of gene expression data obtained by single-cell RNA-seq.

Efficient sampling from a high-dimensional Gaussian distribution is an old but high-stake issue. Vanilla Cholesky samplers imply a computational cost and memory requirements which can rapidly become prohibitive in high dimension. To tackle these issues, multiple methods have been proposed from different communities ranging from iterative numerical linear algebra to Markov chain Monte Carlo (MCMC) approaches. Surprisingly, no complete review and comparison of these methods have been conducted. This paper aims at reviewing all these approaches by pointing out their differences, close relations, benefits and limitations. In addition to this state of the art, this paper proposes a unifying Gaussian simulation framework by deriving a stochastic counterpart of the celebrated proximal point algorithm in optimization. This framework offers a novel and unifying revisit of most of the existing MCMC approaches while extending them. Guidelines to choose the appropriate Gaussian simulation method for a given sampling problem in high dimension are proposed and illustrated with numerical examples.

This paper presents local asymptotic minimax regret lower bounds for adaptive Linear Quadratic Regulators (LQR). We consider affinely parametrized $B$-matrices and known $A$-matrices and aim to understand when logarithmic regret is impossible even in the presence of structural side information. After defining the intrinsic notion of an uninformative optimal policy in terms of a singularity condition for Fisher information we obtain local minimax regret lower bounds for such uninformative instances of LQR by appealing to van Trees' inequality (Bayesian Cram\'er-Rao) and a representation of regret in terms of a quadratic form (Bellman error). It is shown that if the parametrization induces an uninformative optimal policy, logarithmic regret is impossible and the rate is at least order square root in the time horizon. We explicitly characterize the notion of an uninformative optimal policy in terms of the nullspaces of system-theoretic quantities and the particular instance parametrization.

The goal of this paper is to characterize Gaussian-Process optimization in the setting where the function domain is large relative to the number of admissible function evaluations, i.e., where it is impossible to find the global optimum. We provide upper bounds on the suboptimality (Bayesian simple regret) of the solution found by optimization strategies that are closely related to the widely used expected improvement (EI) and upper confidence bound (UCB) algorithms. These regret bounds illuminate the relationship between the number of evaluations, the domain size (i.e. cardinality of finite domains / Lipschitz constant of the covariance function in continuous domains), and the optimality of the retrieved function value. In particular, they show that even when the number of evaluations is far too small to find the global optimum, we can find nontrivial function values (e.g. values that achieve a certain ratio with the optimal value).

We consider a stochastic contextual bandit problem where the dimension $d$ of the feature vectors is potentially large, however, only a sparse subset of features of cardinality $s_0 \ll d$ affect the reward function. Essentially all existing algorithms for sparse bandits require a priori knowledge of the value of the sparsity index $s_0$. This knowledge is almost never available in practice, and misspecification of this parameter can lead to severe deterioration in the performance of existing methods. The main contribution of this paper is to propose an algorithm that does not require prior knowledge of the sparsity index $s_0$ and establish tight regret bounds on its performance under mild conditions. We also comprehensively evaluate our proposed algorithm numerically and show that it consistently outperforms existing methods, even when the correct sparsity index is revealed to them but is kept hidden from our algorithm.

The last decade has witnessed an experimental revolution in data science and machine learning, epitomised by deep learning methods. Indeed, many high-dimensional learning tasks previously thought to be beyond reach -- such as computer vision, playing Go, or protein folding -- are in fact feasible with appropriate computational scale. Remarkably, the essence of deep learning is built from two simple algorithmic principles: first, the notion of representation or feature learning, whereby adapted, often hierarchical, features capture the appropriate notion of regularity for each task, and second, learning by local gradient-descent type methods, typically implemented as backpropagation. While learning generic functions in high dimensions is a cursed estimation problem, most tasks of interest are not generic, and come with essential pre-defined regularities arising from the underlying low-dimensionality and structure of the physical world. This text is concerned with exposing these regularities through unified geometric principles that can be applied throughout a wide spectrum of applications. Such a 'geometric unification' endeavour, in the spirit of Felix Klein's Erlangen Program, serves a dual purpose: on one hand, it provides a common mathematical framework to study the most successful neural network architectures, such as CNNs, RNNs, GNNs, and Transformers. On the other hand, it gives a constructive procedure to incorporate prior physical knowledge into neural architectures and provide principled way to build future architectures yet to be invented.

Reduced-order models are essential tools to deal with parametric problems in the context of optimization, uncertainty quantification, or control and inverse problems. The set of parametric solutions lies in a low-dimensional manifold (with dimension equal to the number of independent parameters) embedded in a large-dimensional space (dimension equal to the number of degrees of freedom of the full-order discrete model). A posteriori model reduction is based on constructing a basis from a family of snapshots (solutions of the full-order model computed offline), and then use this new basis to solve the subsequent instances online. Proper Orthogonal Decomposition (POD) reduces the problem into a linear subspace of lower dimension, eliminating redundancies in the family of snapshots. The strategy proposed here is to use a nonlinear dimensionality reduction technique, namely the kernel Principal Component Analysis (kPCA), in order to find a nonlinear manifold, with an expected much lower dimension, and to solve the problem in this low-dimensional manifold. Guided by this paradigm, the methodology devised here introduces different novel ideas, namely: 1) characterizing the nonlinear manifold using local tangent spaces, where the reduced-order problem is linear and based on the neighbouring snapshots, 2) the approximation space is enriched with the cross-products of the snapshots, introducing a quadratic description, 3) the kernel for kPCA is defined ad-hoc, based on physical considerations, and 4) the iterations in the reduced-dimensional space are performed using an algorithm based on a Delaunay tessellation of the cloud of snapshots in the reduced space. The resulting computational strategy is performing outstandingly in the numerical tests, alleviating many of the problems associated with POD and improving the numerical accuracy.

Network embedding aims to learn a latent, low-dimensional vector representations of network nodes, effective in supporting various network analytic tasks. While prior arts on network embedding focus primarily on preserving network topology structure to learn node representations, recently proposed attributed network embedding algorithms attempt to integrate rich node content information with network topological structure for enhancing the quality of network embedding. In reality, networks often have sparse content, incomplete node attributes, as well as the discrepancy between node attribute feature space and network structure space, which severely deteriorates the performance of existing methods. In this paper, we propose a unified framework for attributed network embedding-attri2vec-that learns node embeddings by discovering a latent node attribute subspace via a network structure guided transformation performed on the original attribute space. The resultant latent subspace can respect network structure in a more consistent way towards learning high-quality node representations. We formulate an optimization problem which is solved by an efficient stochastic gradient descent algorithm, with linear time complexity to the number of nodes. We investigate a series of linear and non-linear transformations performed on node attributes and empirically validate their effectiveness on various types of networks. Another advantage of attri2vec is its ability to solve out-of-sample problems, where embeddings of new coming nodes can be inferred from their node attributes through the learned mapping function. Experiments on various types of networks confirm that attri2vec is superior to state-of-the-art baselines for node classification, node clustering, as well as out-of-sample link prediction tasks. The source code of this paper is available at //github.com/daokunzhang/attri2vec.

Proximal Policy Optimization (PPO) is a highly popular model-free reinforcement learning (RL) approach. However, in continuous state and actions spaces and a Gaussian policy -- common in computer animation and robotics -- PPO is prone to getting stuck in local optima. In this paper, we observe a tendency of PPO to prematurely shrink the exploration variance, which naturally leads to slow progress. Motivated by this, we borrow ideas from CMA-ES, a black-box optimization method designed for intelligent adaptive Gaussian exploration, to derive PPO-CMA, a novel proximal policy optimization approach that can expand the exploration variance on objective function slopes and shrink the variance when close to the optimum. This is implemented by using separate neural networks for policy mean and variance and training the mean and variance in separate passes. Our experiments demonstrate a clear improvement over vanilla PPO in many difficult OpenAI Gym MuJoCo tasks.

Deep learning is the mainstream technique for many machine learning tasks, including image recognition, machine translation, speech recognition, and so on. It has outperformed conventional methods in various fields and achieved great successes. Unfortunately, the understanding on how it works remains unclear. It has the central importance to lay down the theoretic foundation for deep learning. In this work, we give a geometric view to understand deep learning: we show that the fundamental principle attributing to the success is the manifold structure in data, namely natural high dimensional data concentrates close to a low-dimensional manifold, deep learning learns the manifold and the probability distribution on it. We further introduce the concepts of rectified linear complexity for deep neural network measuring its learning capability, rectified linear complexity of an embedding manifold describing the difficulty to be learned. Then we show for any deep neural network with fixed architecture, there exists a manifold that cannot be learned by the network. Finally, we propose to apply optimal mass transportation theory to control the probability distribution in the latent space.