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We develop both first and second order numerical optimization methods to solve non-smooth optimization problems featuring a shared sparsity penalty, constrained by differential equations with uncertainty. To alleviate the curse of dimensionality we use tensor product approximations. To handle the non-smoothness of the objective function we introduce a smoothed version of the shared sparsity objective. We consider both a benchmark elliptic PDE constraint, and a more realistic topology optimization problem. We demonstrate that the error converges linearly in iterations and the smoothing parameter, and faster than algebraically in the number of degrees of freedom, consisting of the number of quadrature points in one variable and tensor ranks. Moreover, in the topology optimization problem, the smoothed shared sparsity penalty actually reduces the tensor ranks compared to the unpenalised solution. This enables us to find a sparse high-resolution design under a high-dimensional uncertainty.

We consider a problem of inferring contact network from nodal states observed during an epidemiological process. In a black--box Bayesian optimisation framework this problem reduces to a discrete likelihood optimisation over the set of possible networks. The cardinality of this set grows combinatorially with the number of network nodes, which makes this optimisation computationally challenging. For each network, its likelihood is the probability for the observed data to appear during the evolution of the epidemiological process on this network. This probability can be very small, particularly if the network is significantly different from the ground truth network, from which the observed data actually appear. A commonly used stochastic simulation algorithm struggles to recover rare events and hence to estimate small probabilities and likelihoods. In this paper we replace the stochastic simulation with solving the chemical master equation for the probabilities of all network states. Since this equation also suffers from the curse of dimensionality, we apply tensor train approximations to overcome it and enable fast and accurate computations. Numerical simulations demonstrate efficient black--box Bayesian inference of the network.

The solution of computational fluid dynamics problems is one of the most computationally hard tasks, especially in the case of complex geometries and turbulent flow regimes. We propose to use Tensor Train (TT) methods, which possess logarithmic complexity in problem size and have great similarities with quantum algorithms in the structure of data representation. We develop the Tensor train Finite Element Method -- TetraFEM -- and the explicit numerical scheme for the solution of the incompressible Navier-Stokes equation via Tensor Trains. We test this approach on the simulation of liquids mixing in a T-shape mixer, which, to our knowledge, was done for the first time using tensor methods in such non-trivial geometries. As expected, we achieve exponential compression in memory of all FEM matrices and demonstrate an exponential speed-up compared to the conventional FEM implementation on dense meshes. In addition, we discuss the possibility of extending this method to a quantum computer to solve more complex problems. This paper is based on work we conducted for Evonik Industries AG.

Transport map methods offer a powerful statistical learning tool that can couple a target high-dimensional random variable with some reference random variable using invertible transformations. This paper presents new computational techniques for building the Knothe--Rosenblatt (KR) rearrangement based on general separable functions. We first introduce a new construction of the KR rearrangement -- with guaranteed invertibility in its numerical implementation -- based on approximating the density of the target random variable using tensor-product spectral polynomials and downward closed sparse index sets. Compared to other constructions of KR arrangements based on either multi-linear approximations or nonlinear optimizations, our new construction only relies on a weighted least square approximation procedure. Then, inspired by the recently developed deep tensor trains (Cui and Dolgov, Found. Comput. Math. 22:1863--1922, 2022), we enhance the approximation power of sparse polynomials by preconditioning the density approximation problem using compositions of maps. This is particularly suitable for high-dimensional and concentrated probability densities commonly seen in many applications. We approximate the complicated target density by a composition of self-reinforced KR rearrangements, in which previously constructed KR rearrangements -- based on the same approximation ansatz -- are used to precondition the density approximation problem for building each new KR rearrangement. We demonstrate the efficiency of our proposed methods and the importance of using the composite map on several inverse problems governed by ordinary differential equations (ODEs) and partial differential equations (PDEs).

High-dimensional data in the form of tensors are challenging for kernel classification methods. To both reduce the computational complexity and extract informative features, kernels based on low-rank tensor decompositions have been proposed. However, what decisive features of the tensors are exploited by these kernels is often unclear. In this paper we propose a novel kernel that is based on the Tucker decomposition. For this kernel the Tucker factors are computed based on re-weighting of the Tucker matrices with tuneable powers of singular values from the HOSVD decomposition. This provides a mechanism to balance the contribution of the Tucker core and factors of the data. We benchmark support tensor machines with this new kernel on several datasets. First we generate synthetic data where two classes differ in either Tucker factors or core, and compare our novel and previously existing kernels. We show robustness of the new kernel with respect to both classification scenarios. We further test the new method on real-world datasets. The proposed kernel has demonstrated a higher test accuracy than the state-of-the-art tensor train multi-way multi-level kernel, and a significantly lower computational time.

We propose an algorithm to solve optimization problems constrained by partial (ordinary) differential equations under uncertainty, with almost sure constraints on the state variable. To alleviate the computational burden of high-dimensional random variables, we approximate all random fields by the tensor-train decomposition. To enable efficient tensor-train approximation of the state constraints, the latter are handled using the Moreau-Yosida penalty, with an additional smoothing of the positive part (plus/ReLU) function by a softplus function. In a special case of a quadratic cost minimization constrained by linear elliptic partial differential equations, and some additional constraint qualification, we prove strong convergence of the regularized solution to the optimal control. This result also proposes a practical recipe for selecting the smoothing parameter as a function of the penalty parameter. We develop a second order Newton type method with a fast matrix-free action of the approximate Hessian to solve the smoothed Moreau-Yosida problem. This algorithm is tested on benchmark elliptic problems with random coefficients, optimization problems constrained by random elliptic variational inequalities, and a real-world epidemiological model with 20 random variables. These examples demonstrate mild (at most polynomial) scaling with respect to the dimension and regularization parameters., Comment: 28 pages

We propose a deep importance sampling method that is suitable for estimating rare event probabilities in high-dimensional problems. We approximate the optimal importance distribution in a general importance sampling problem as the pushforward of a reference distribution under a composition of order-preserving transformations, in which each transformation is formed by a squared tensor-train decomposition. The squared tensor-train decomposition provides a scalable ansatz for building order-preserving high-dimensional transformations via density approximations. The use of composition of maps moving along a sequence of bridging densities alleviates the difficulty of directly approximating concentrated density functions. To compute expectations over unnormalized probability distributions, we design a ratio estimator that estimates the normalizing constant using a separate importance distribution, again constructed via a composition of transformations in tensor-train format. This offers better theoretical variance reduction compared with self-normalized importance sampling, and thus opens the door to efficient computation of rare event probabilities in Bayesian inference problems. Numerical experiments on problems constrained by differential equations show little to no increase in the computational complexity with the event probability going to zero, and allow to compute hitherto unattainable estimates of rare event probabilities for complex, high-dimensional posterior densities.

To improve mathematical models of epidemics it is essential to move beyond the traditional assumption of homogeneous well--mixed population and involve more precise information on the network of contacts and transport links by which a stochastic process of the epidemics spreads. In general, the number of states of the network grows exponentially with its size, and a master equation description suffers from the curse of dimensionality. Almost all methods widely used in practice are versions of the stochastic simulation algorithm (SSA), which is notoriously known for its slow convergence. In this paper we numerically solve the chemical master equation for an SIR model on a general network using recently proposed tensor product algorithms. In numerical experiments we show that tensor product algorithms converge much faster than SSA and deliver more accurate results, which becomes particularly important for uncovering the probabilities of rare events, e.g. for number of infected people to exceed a (high) threshold.

Combinations of spectroscopic analysis and microscopic techniques are used across many disciplines of scientific research, including material science, chemistry and biology. X-ray spectromicroscopy, in particular, is a powerful tool used for studying chemical state distributions at the micro and nano scales. With the beam fixed, a specimen is typically rastered through the probe with continuous motion and a range of multimodal data is collected at fixed time intervals. The application of this technique is limited in some areas due to: long scanning times to collect the data, either because of the area/volume under study or the compositional properties of the specimen; and material degradation due to the dose absorbed during the measurement. In this work, we propose a novel approach for reducing the dose and scanning times by undersampling the raster data. This is achieved by skipping rows within scans and reconstructing the x-ray spectromicroscopic measurements using low-rank matrix completion. The new method is robust and allows for x 5-6 reduction in sampling. Experimental results obtained on real data are illustrated., Comment: 22 pages,11 figures

A gradient-enhanced functional tensor train cross approximation method for the resolution of the Hamilton-Jacobi-Bellman (HJB) equations associated to optimal feedback control of nonlinear dynamics is presented. The procedure uses samples of both the solution of the HJB equation and its gradient to obtain a tensor train approximation of the value function. The collection of the data for the algorithm is based on two possible techniques: Pontryagin Maximum Principle and State Dependent Riccati Equations. Several numerical tests are presented in low and high dimension showing the effectiveness of the proposed method and its robustness with respect to inexact data evaluations, provided by the gradient information. The resulting tensor train approximation paves the way towards fast synthesis of the control signal in real-time applications.

An optimized variant of the State Dependent Riccati Equations (SDREs) approach for nonlinear optimal feedback stabilization is presented. The proposed method is based on the construction of equivalent semilinear representations associated to the dynamics and their affine combination. The optimal combination is chosen to minimize the discrepancy between the SDRE control and the optimal feedback law stemming from the solution of the corresponding Hamilton Jacobi Bellman (HJB) equation. Numerical experiments assess effectiveness of the method in terms of stability of the closed-loop with near-to-optimal performance.

This article develops a new algorithm named TTRISK to solve high-dimensional risk-averse optimization problems governed by differential equations (ODEs and/or PDEs) under uncertainty. As an example, we focus on the so-called Conditional Value at Risk (CVaR), but the approach is equally applicable to other coherent risk measures. Both the full and reduced space formulations are considered. The algorithm is based on low rank tensor approximations of random fields discretized using stochastic collocation. To avoid non-smoothness of the objective function underpinning the CVaR, we propose an adaptive strategy to select the width parameter of the smoothed CVaR to balance the smoothing and tensor approximation errors. Moreover, unbiased Monte Carlo CVaR estimate can be computed by using the smoothed CVaR as a control variate. To accelerate the computations, we introduce an efficient preconditioner for the KKT system in the full space formulation.The numerical experiments demonstrate that the proposed method enables accurate CVaR optimization constrained by large-scale discretized systems. In particular, the first example consists of an elliptic PDE with random coefficients as constraints. The second example is motivated by a realistic application to devise a lockdown plan for United Kingdom under COVID-19. The results indicate that the risk-averse framework is feasible with the tensor approximations under tens of random variables., Comment: 28 pages

Understanding turbulence is the key to our comprehension of many natural and technological flow processes. At the heart of this phenomenon lies its intricate multi-scale nature, describing the coupling between different-sized eddies in space and time. Here we introduce a new paradigm for analyzing the structure of turbulent flows by quantifying correlations between different length scales using methods inspired from quantum many-body physics. We present results for interscale correlations of two paradigmatic flow examples, and use these insights along with tensor network theory to design a structure-resolving algorithm for simulating turbulent flows. With this algorithm, we find that the incompressible Navier-Stokes equations can be accurately solved within a computational space reduced by over an order of magnitude compared to direct numerical simulation. Our quantum-inspired approach provides a pathway towards conducting computational fluid dynamics on quantum computers., Comment: Newest and final version of our article

We present a novel offline-online method to mitigate the computational burden of the characterization of posterior random variables in statistical learning. In the offline phase, the proposed method learns the joint law of the parameter random variables and the observable random variables in the tensor-train (TT) format. In the online phase, the resulting order-preserving conditional transport can characterize the posterior random variables given newly observed data in real time. Compared with the state-of-the-art normalizing flow techniques, the proposed method relies on function approximation and is equipped with a thorough performance analysis. The function approximation perspective also allows us to further extend the capability of transport maps in challenging problems with high-dimensional observations and high-dimensional parameters. On the one hand, we present novel heuristics to reorder and/or reparametrize the variables to enhance the approximation power of TT. On the other hand, we integrate the TT-based transport maps and the parameter reordering/reparametrization into layered compositions to further improve the performance of the resulting transport maps. We demonstrate the efficiency of the proposed method on various statistical learning tasks in ordinary differential equations (ODEs) and partial differential equations (PDEs)., Comment: 41 pages

This work is concerned with approximating a trivariate function defined on a tensor-product domain via function evaluations. Combining tensorized Chebyshev interpolation with a Tucker decomposition of low multilinear rank yields function approximations that can be computed and stored very efficiently. The existing Chebfun3 algorithm [Hashemi and Trefethen, SIAM J. Sci. Comput., 39 (2017)]uses a similar format but the construction of the approximation proceeds indirectly, via a so called slice-Tucker decomposition. As a consequence, Chebfun3 sometimes uses unnecessarily many function evaluations and does not fully benefit from the potential of the Tucker decomposition to reduce, sometimes dramatically, the computational cost. We propose a novel algorithm Chebfun3F that utilizes univariate fibers instead of bivariate slices to construct the Tucker decomposition. Chebfun3F reduces the cost for the approximation in terms of the number of function evaluations for nearly all functions considered, typically by 75%, and sometimes by over 98%.

Characterising intractable high-dimensional random variables is one of the fundamental challenges in stochastic computation. The recent surge of transport maps offers a mathematical foundation and new insights for tackling this challenge by coupling intractable random variables with tractable reference random variables. This paper generalises the functional tensor-train approximation of the inverse Rosenblatt transport recently developed by Dolgov et al. (Stat Comput 30:603--625, 2020) to a wide class of high-dimensional non-negative functions, such as unnormalised probability density functions. First, we extend the inverse Rosenblatt transform to enable the transport to general reference measures other than the uniform measure. We develop an efficient procedure to compute this transport from a squared tensor-train decomposition which preserves the monotonicity. More crucially, we integrate the proposed order-preserving functional tensor-train transport into a nested variable transformation framework inspired by the layered structure of deep neural networks. The resulting deep inverse Rosenblatt transport significantly expands the capability of tensor approximations and transport maps to random variables with complicated nonlinear interactions and concentrated density functions. We demonstrate the efficiency of the proposed approach on a range of applications in statistical learning and uncertainty quantification, including parameter estimation for dynamical systems and inverse problems constrained by partial differential equations., Comment: Found Comput Math (2021)

An increasing amount of collected data are high-dimensional multi-way arrays (tensors), and it is crucial for efficient learning algorithms to exploit this tensorial structure as much as possible. The ever-present curse of dimensionality for high dimensional data and the loss of structure when vectorizing the data motivates the use of tailored low-rank tensor classification methods. In the presence of small amounts of training data, kernel methods offer an attractive choice as they provide the possibility for a nonlinear decision boundary. We develop the Tensor Train Multi-way Multi-level Kernel (TT-MMK), which combines the simplicity of the Canonical Polyadic decomposition, the classification power of the Dual Structure-preserving Support Vector Machine, and the reliability of the Tensor Train (TT) approximation. We show by experiments that the TT-MMK method is usually more reliable computationally, less sensitive to tuning parameters, and gives higher prediction accuracy in the SVM classification when benchmarked against other state-of-the-art techniques., Comment: 20 pages, 5 figures, 2 table, 2 Algorithm

Low-rank tensor approximations have shown great potential for uncertainty quantification in high dimensions, for example, to build surrogate models that can be used to speed up large-scale inference problems (Eigel et al., Inverse Problems 34, 2018; Dolgov et al., Statistics & Computing 30, 2020). The feasibility and efficiency of such approaches depends critically on the rank that is necessary to represent or approximate the underlying distribution. In this paper, a-priori rank bounds for approximations in the functional tensor-train representation for the case of Gaussian models are developed. It is shown that under suitable conditions on the precision matrix, the Gaussian density can be approximated to high accuracy without suffering from an exponential growth of complexity as the dimension increases. These results provide a rigorous justification of the suitability and the limitations of low-rank tensor methods in a simple but important model case. Numerical experiments confirm that the rank bounds capture the qualitative behavior of the rank structure when varying the parameters of the precision matrix and the accuracy of the approximation. Finally, the practical relevance of the theoretical results is demonstrated in the context of a Bayesian filtering problem., Comment: 25 pages, 6 figures

Differential algebraic Riccati equations are at the heart of many applications in control theory. They are time-depent, matrix-valued, and in particular nonlinear equations that require special methods for their solution. Low-rank methods have been used heavily computing a low-rank solution at every step of a time-discretization. We propose the use of an all-at-once space-time solution leading to a large nonlinear space-time problem for which we propose the use of a Newton-Kleinman iteration. Approximating the space-time problem in low-rank form requires fewer applications of the discretized differential operator and gives a low-rank approximation to the overall solution., Comment: 20 pages

Combining the time-dependent variational principle (TDVP) algorithm with the parallelization scheme introduced by Stoudenmire and White for the density matrix renormalization group (DMRG), we present the first parallel matrix product state (MPS) algorithm capable of time evolving one-dimensional (1D) quantum lattice systems with long-range interactions. We benchmark the accuracy and performance of the algorithm by simulating quenches in the long-range Ising and XY models. We show that our code scales well up to 32 processes, with parallel efficiencies as high as 86%. Finally, we calculate the dynamical correlation function of a 201-site Heisenberg XXX spin chain with $1/r^2$ interactions, which is challenging to compute sequentially. These results pave the way for the application of tensor networks to increasingly complex many-body systems., Comment: Version accepted for publication in Phys. Rev. B. Text clarified and references updated. Main text: 11 pages, 13 figures. Appendices: 3 pages, 3 figures. Supplemental material: 4 pages, 3 figures

A tensor decomposition approach for the solution of high-dimensional, fully nonlinear Hamilton-Jacobi-Bellman equations arising in optimal feedback control of nonlinear dynamics is presented. The method combines a tensor train approximation for the value function together with a Newton-like iterative method for the solution of the resulting nonlinear system. The tensor approximation leads to a polynomial scaling with respect to the dimension, partially circumventing the curse of dimensionality. A convergence analysis for the linear-quadratic case is presented. For nonlinear dynamics, the effectiveness of the high-dimensional control synthesis method is assessed in the optimal feedback stabilization of the Allen-Cahn and Fokker-Planck equations with a hundred of variables., Comment: 26pp, to appear in SIAM J. Sci. Comput

We propose a guaranteed and fully computable upper bound on the energy norm of the error in low-rank Tensor Train (TT) approximate solutions of (possibly) high dimensional reaction-diffusion problems. The error bound is obtained from Euler-Lagrange equations for a complementary flux reconstruction problem, which are solved in the low-rank TT representation using the block Alternating Linear Scheme. This bound is guaranteed to be above the energy norm of the total error, including the discretization error, the tensor approximation error, and the error in the solver of linear algebraic equations, although quadrature errors, in general, can pollute its evaluation. Numerical examples with the Poisson equation and the Schroedinger equation with the Henon-Heiles potential in up to 40 dimensions are presented to illustrate the efficiency of this approach.

Combination of low-tensor rank techniques and the Fast Fourier transform (FFT) based methods had turned out to be prominent in accelerating various statistical operations such as Kriging, computing conditional covariance, geostatistical optimal design, and others. However, the approximation of a full tensor by its low-rank format can be computationally formidable. In this work, we incorporate the robust Tensor Train (TT) approximation of covariance matrices and the efficient TT-Cross algorithm into the FFT-based Kriging. It is shown that here the computational complexity of Kriging is reduced to $\mathcal{O}(d r^3 n)$, where $n$ is the mode size of the estimation grid, $d$ is the number of variables (the dimension), and $r$ is the rank of the TT approximation of the covariance matrix. For many popular covariance functions the TT rank $r$ remains stable for increasing $n$ and $d$. The advantages of this approach against those using plain FFT are demonstrated in synthetic and real data examples., Comment: 19 pages,4 figures, 1 table, UNCECOMP 2019 3rd International Conference on Uncertainty Quantification in Computational Sciences and Engineering 24-26 June 2019, Crete, Greece https://2019.uncecomp.org/

We propose a parallel version of the cross interpolation algorithm and apply it to calculate high-dimensional integrals motivated by Ising model in quantum physics. In contrast to mainstream approaches, such as Monte Carlo and quasi Monte Carlo, the samples calculated by our algorithm are neither random nor form a regular lattice. Instead we calculate the given function along individual dimensions (modes) and use this data to reconstruct its behaviour in the whole domain. The positions of the calculated univariate fibers are chosen adaptively for the given function. The required evaluations can be executed in parallel both along each mode (variable) and over all modes. To demonstrate the efficiency of the proposed method, we apply it to compute high-dimensional Ising susceptibility integrals, arising from asymptotic expansions for the spontaneous magnetisation in two-dimensional Ising model of ferromagnetism. We observe strong superlinear convergence of the proposed method, while the MC and qMC algorithms converge sublinearly. Using multiple precision arithmetic, we also observed exponential convergence of the proposed algorithm. Combining high-order convergence, almost perfect scalability up to hundreds of processes, and the same flexibility as MC and qMC, the proposed algorithm can be a new method of choice for problems involving high-dimensional integration, e.g. in statistics, probability, and quantum physics.

In this proof-of-concept paper we show that tensor product approach is efficient for control of large quantum systems, such as Heisenberg spin wires, which are essential for emerging quantum computing technologies. We compute optimal control sequences using GRAPE method, applying the recently developed tAMEn algorithm to calculate evolution of quantum states represented in the tensor train format to reduce storage. Using tensor product algorithms we can overcome the curse of dimensionality and compute the optimal control pulse for a 41 spin system on a single workstation with fully controlled accuracy and huge savings of computational time and memory. The use of tensor product algorithms opens new approaches for development of quantum computers with 50 to 100 qubits., Comment: To appear in Proc. IMSE 2018

Isogeometric analysis (IGA) has become one of the most popular methods for the discretization of partial differential equations motivated by the use of NURBS for geometric representations in industry and science. A crucial challenge lies in the solution of the discretized equations, which we discuss in this talk with a particular focus on PDE-constrained optimization discretized using IGA. The discretization results in a system of large mass and stiffness matrices, which are typically very costly to assemble. To reduce the computation time and storage requirements, low-rank tensor methods have become a promising tool. We present a framework for the assembly of these matrices in low-rank form as the sum of a small number of Kronecker products. For assembly of the smaller matrices only univariate integration is required. The resulting low rank Kronecker product structure of the mass and stiffness matrices can be used to solve a PDE-constrained optimization problem without assembling the actual system matrices. We present a framework which preserves and exploits the low-rank Kronecker product format for both the matrices and the solution. We use the block AMEn method to efficiently solve the corresponding KKT system of the optimization problem. We show several numerical experiments with 3D geometries to demonstrate that the low-rank assembly and solution drastically reduces the memory demands and computing times, depending on the approximation ranks of the domain., Comment: 23 pages, 9 figures

General multivariate distributions are notoriously expensive to sample from, particularly the high-dimensional posterior distributions in PDE-constrained inverse problems. This paper develops a sampler for arbitrary continuous multivariate distributions that is based on low-rank surrogates in the tensor-train format. We construct a tensor-train approximation to the target probability density function using the cross interpolation, which requires a small number of function evaluations. For sufficiently smooth distributions the storage required for the TT approximation is moderate, scaling linearly with dimension. The structure of the tensor-train surrogate allows efficient sampling by the conditional distribution method. Unbiased estimates may be calculated by correcting the transformed random seeds using a Metropolis--Hastings accept/reject step. Moreover, one can use a more efficient quasi-Monte Carlo quadrature that may be corrected either by a control-variate strategy, or by importance weighting. We show that the error in the tensor-train approximation propagates linearly into the Metropolis--Hastings rejection rate and the integrated autocorrelation time of the resulting Markov chain. These methods are demonstrated in three computed examples: fitting failure time of shock absorbers; a PDE-constrained inverse diffusion problem; and sampling from the Rosenbrock distribution. The delayed rejection adaptive Metropolis (DRAM) algorithm is used as a benchmark. We find that the importance-weight corrected quasi-Monte Carlo quadrature performs best in all computed examples, and is orders-of-magnitude more efficient than DRAM across a wide range of approximation accuracies and sample sizes. Indeed, all the methods developed here significantly outperform DRAM in all computed examples., Comment: 32 pages

Recovering brain connectivity from tract tracing data is an important computational problem in the neurosciences. Mesoscopic connectome reconstruction was previously formulated as a structured matrix regression problem (Harris et al., 2016), but existing techniques do not scale to the whole-brain setting. The corresponding matrix equation is challenging to solve due to large scale, ill-conditioning, and a general form that lacks a convergent splitting. We propose a greedy low-rank algorithm for connectome reconstruction problem in very high dimensions. The algorithm approximates the solution by a sequence of rank-one updates which exploit the sparse and positive definite problem structure. This algorithm was described previously (Kressner and Sirkovi\'c, 2015) but never implemented for this connectome problem, leading to a number of challenges. We have had to design judicious stopping criteria and employ efficient solvers for the three main sub-problems of the algorithm, including an efficient GPU implementation that alleviates the main bottleneck for large datasets. The performance of the method is evaluated on three examples: an artificial "toy" dataset and two whole-cortex instances using data from the Allen Mouse Brain Connectivity Atlas. We find that the method is significantly faster than previous methods and that moderate ranks offer good approximation. This speedup allows for the estimation of increasingly large-scale connectomes across taxa as these data become available from tracing experiments. The data and code are available online.

In this paper, we consider the fast numerical solution of an optimal control formulation of the Keller--Segel model for bacterial chemotaxis. Upon discretization, this problem requires the solution of huge-scale saddle point systems to guarantee accurate solutions. We consider the derivation of effective preconditioners for these matrix systems, which may be embedded within suitable iterative methods to accelerate their convergence. We also construct low-rank tensor-train techniques which enable us to present efficient and feasible algorithms for problems that are finely discretized in the space and time variables. Numerical results demonstrate that the number of preconditioned GMRES iterations depends mildly on the model parameters. Moreover, the low-rank solver makes the computing time and memory costs sublinear in the original problem size., Comment: 23 pages

We consider the approximate solution of parametric PDEs using the low-rank Tensor Train (TT) decomposition. Such parametric PDEs arise for example in uncertainty quantification problems in engineering applications. We propose an algorithm that is a hybrid of the alternating least squares and the TT cross methods. It computes a TT approximation of the whole solution, which is beneficial when multiple quantities of interest are sought. This might be needed, for example, for the computation of the probability density function (PDF) via the maximum entropy method [Kavehrad and Joseph, IEEE Trans. Comm., 1986]. The new algorithm exploits and preserves the block diagonal structure of the discretized operator in stochastic collocation schemes. This disentangles computations of the spatial and parametric degrees of freedom in the TT representation. In particular, it only requires solving independent PDEs at a few parameter values, thus allowing the use of existing high performance PDE solvers. In our numerical experiments, we apply the new algorithm to the stochastic diffusion equation and compare it with preconditioned steepest descent in the TT format, as well as with (multilevel) quasi-Monte Carlo and dimension-adaptive sparse grids methods. For sufficiently smooth random fields the new approach is orders of magnitude faster., Comment: 29 pages

Many problems in computational science and engineering are simultaneously characterized by the following challenging issues: uncertainty, nonlinearity, nonstationarity and high dimensionality. Existing numerical techniques for such models would typically require considerable computational and storage resources. This is the case, for instance, for an optimization problem governed by time-dependent Navier-Stokes equations with uncertain inputs. In particular, the stochastic Galerkin finite element method often leads to a prohibitively high dimensional saddle-point system with tensor product structure. In this paper, we approximate the solution by the low-rank Tensor Train decomposition, and present a numerically efficient algorithm to solve the optimality equations directly in the low-rank representation. We show that the solution of the vorticity minimization problem with a distributed control admits a representation with ranks that depend modestly on model and discretization parameters even for high Reynolds numbers. For lower Reynolds numbers this is also the case for a boundary control. This opens the way for a reduced-order modeling of the stochastic optimal flow control with a moderate cost at all stages., Comment: 29 pages

In this paper, we study and implement the structural iterative eigensolvers for the large-scale eigenvalue problem in the Bethe-Salpeter equation (BSE) based on the reduced basis approach via low-rank factorizations in generating matrices, introduced in the previous paper. The approach reduces numerical costs down to $\mathcal{O}(N_b^2)$ in the size of atomic orbitals basis set, $N_b$, instead of practically intractable $\mathcal{O}(N_b^6)$ complexity scaling for the direct diagonalization of the BSE matrix. As an alternative to rank approximation of the static screen interaction part of the BSE matrix, we propose to restrict it to a small active sub-block, with a size balancing the storage for rank-structured representations of other matrix blocks. We demonstrate that the enhanced reduced-block approximation exhibits higher precision within the controlled numerical cost, providing as well a distinct two-sided error estimate for the BSE eigenvalues. It is shown that further reduction of the asymptotic computational cost is possible due to ALS-type iteration in block tensor train (TT) format applied to the quantized-TT (QTT) tensor representation of both long eigenvectors and rank-structured matrix blocks. The QTT-rank of these entities possesses almost the same magnitude as the number of occupied orbitals in the molecular systems, $N_o$, hence the overall asymptotic complexity for solving the BSE problem can be estimated by $\mathcal{O}(\log(N_o) N_o^{2})$. We confirm numerically a considerable decrease in computational time for the presented iterative approach applied to various compact and chain-type molecules, while supporting sufficient accuracy., Comment: 23 pages, 11 figures

We apply the Tensor Train (TT) decomposition to construct the tensor product Polynomial Chaos Expansion (PCE) of a random field, to solve the stochastic elliptic diffusion PDE with the stochastic Galerkin discretization, and to compute some quantities of interest (mean, variance, exceedance probabilities). We assume that the random diffusion coefficient is given as a smooth transformation of a Gaussian random field. In this case, the PCE is delivered by a complicated formula, which lacks an analytic TT representation. To construct its TT approximation numerically, we develop the new block TT cross algorithm, a method that computes the whole TT decomposition from a few evaluations of the PCE formula. The new method is conceptually similar to the adaptive cross approximation in the TT format, but is more efficient when several tensors must be stored in the same TT representation, which is the case for the PCE. Besides, we demonstrate how to assemble the stochastic Galerkin matrix and to compute the solution of the elliptic equation and its post-processing, staying in the TT format. We compare our technique with the traditional sparse polynomial chaos and the Monte Carlo approaches. In the tensor product polynomial chaos, the polynomial degree is bounded for each random variable independently. This provides higher accuracy than the sparse polynomial set or the Monte Carlo method, but the cardinality of the tensor product set grows exponentially with the number of random variables. However, when the PCE coefficients are implicitly approximated in the TT format, the computations with the full tensor product polynomial set become possible. In the numerical experiments, we confirm that the new methodology is competitive in a wide range of parameters, especially where high accuracy and high polynomial degrees are required., Comment: This is a major revision of the manuscript arXiv:1406.2816 with significantly extended numerical experiments. Some unused material is removed

We apply the Tensor Train (TT) approximation to construct the Polynomial Chaos Expansion (PCE) of a random field, and solve the stochastic elliptic diffusion PDE with the stochastic Galerkin discretization. We compare two strategies of the polynomial chaos expansion: sparse and full polynomial (multi-index) sets. In the full set, the polynomial orders are chosen independently in each variable, which provides higher flexibility and accuracy. However, the total amount of degrees of freedom grows exponentially with the number of stochastic coordinates. To cope with this curse of dimensionality, the data is kept compressed in the TT decomposition, a recurrent low-rank factorization. PCE computations on sparse grids sets are extensively studied, but the TT representation for PCE is a novel approach that is investigated in this paper. We outline how to deduce the PCE from the covariance matrix, assemble the Galerkin operator, and evaluate some post-processing (mean, variance, Sobol indices), staying within the low-rank framework. The most demanding are two stages. First, we interpolate PCE coefficients in the TT format using a few number of samples, which is performed via the block cross approximation method. Second, we solve the discretized equation (large linear system) via the alternating minimal energy algorithm. In the numerical experiments we demonstrate that the full expansion set encapsulated in the TT format is indeed preferable in cases when high accuracy and high polynomial orders are required., Comment: 28 pages. Submitted to SIAM J. of Uncertainty Quantification

We propose an algorithm for solution of high-dimensional evolutionary equations (ODEs and discretized time-dependent PDEs) in the Tensor Train (TT) decomposition, assuming that the solution and the right-hand side of the ODE admit such a decomposition with a low storage. A linear ODE, discretized via one-step or Chebyshev differentiation schemes, turns into a large linear system. The tensor decomposition allows to solve this system for several time points simultaneously using an extension of the Alternating Least Squares algorithm. This method computes the TT approximation of the solution directly, without ever solving the original large problem, and encapsulates the Galerkin model reduction of the ODE. This allows an efficient estimation of the time discretization error, and hence provides a way to adapt the time steps. Besides, conservation laws can be preserved exactly in the reduced model by expanding the approximation subspace with the generating vectors of the linear invariants and correction of the euclidean norm. In numerical experiments with the transport and the chemical master equations, we demonstrate that the new method is faster than traditional time stepping and stochastic simulation algorithms, whereas the invariants are preserved up to the machine precision irrespectively of the TT approximation accuracy.

Given in the title are two algorithms to compute the extreme eigenstate of a high-dimensional Hermitian matrix using the tensor train (TT) / matrix product states (MPS) representation. Both methods empower the traditional alternating direction scheme with the auxiliary (e.g. gradient) information, which substantially improves the convergence in many difficult cases. Being conceptually close, these methods have different derivation, implementation, theoretical and practical properties. We emphasize the differences, and reproduce the numerical example to compare the performance of two algorithms., Comment: Submitted to the proceedings of ENUMATH 2013

We study the application of the novel tensor formats (TT, QTT, QTT-Tucker) to the solution of $d$-dimensional chemical master equations, applied mostly to gene regulating networks (signaling cascades, toggle switches, phage-$\lambda$). For some important cases, e.g. signaling cascade models, we prove good separability properties of the system operator. The Quantized tensor representations (QTT, QTT-Tucker) are employed in both state space and time, and the global state-time $(d+1)$-dimensional system is solved in the structured form by using the ALS-type iteration. This approach leads to the logarithmic dependence of the computational complexity on the system size. When possible, we compare our approach with the direct CME solution and some previously known approximate schemes, and observe a good potential of the newer tensor methods in simulation of relevant biological systems., Comment: This is an essentially improved version of the preprint [12]. This manuscript contains all the same numerical experiments, but some inaccuracies in the description of the modeling equations are corrected. Besides, more detailed introduction to the tensor methods is presented

We consider an approximate computation of several minimal eigenpairs of large Hermitian matrices which come from high--dimensional problems. We use the tensor train format (TT) for vectors and matrices to overcome the curse of dimensionality and make storage and computational cost feasible. Applying a block version of the TT format to several vectors simultaneously, we compute the low--lying eigenstates of a system by minimization of a block Rayleigh quotient performed in an alternating fashion for all dimensions. For several numerical examples, we compare the proposed method with the deflation approach when the low--lying eigenstates are computed one-by-one, and also with the variational algorithms used in quantum physics., Comment: Submitted to Comput Phys Comm

In this paper we accomplish the development of the fast rank-adaptive solver for tensor-structured symmetric positive definite linear systems in higher dimensions. In [arXiv:1301.6068] this problem is approached by alternating minimization of the energy function, which we combine with steps of the basis expansion in accordance with the steepest descent algorithm. In this paper we combine the same steps in such a way that the resulted algorithm works with one or two neighboring cores at a time. The recurrent interpretation of the algorithm allows to prove the global convergence and to estimate the convergence rate. We also propose several strategies, both rigorous and heuristic, to compute new subspaces for the basis enrichment in a more efficient way. We test the algorithm on a number of high-dimensional problems, including the non-symmetrical Fokker-Planck and chemical master equations, for which the efficiency of the method is not fully supported by the theory. In all examples we observe a convincing fast convergence and high efficiency of the proposed method., Comment: Submitted to SIAM J Sci Comp