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We use a Gaussian Process Regression (GPR) strategy that was recently developed [3,16,17] to analyze different types of curves that are commonly encountered in parametric eigenvalue problems. We employ an offline-online decomposition method. In the offline phase, we generate the basis of the reduced space by applying the proper orthogonal decomposition (POD) method on a collection of pre-computed, full-order snapshots at a chosen set of parameters. Then, we generate our GPR model using four different Mat\'{e}rn covariance functions. In the online phase, we use this model to predict both eigenvalues and eigenvectors at new parameters. We then illustrate how the choice of each covariance function influences the performance of GPR. Furthermore, we discuss the connection between Gaussian Process Regression and spline methods and compare the performance of the GPR method against linear and cubic spline methods. We show that GPR outperforms other methods for functions with a certain regularity.

Symplectic integrators are widely implemented numerical integrators for Hamiltonian mechanics, which preserve the Hamiltonian structure (symplecticity) of the system. Although the symplectic integrator does not conserve the energy of the system, it is well known that there exists a conserving modified Hamiltonian, called the shadow Hamiltonian. For the Nambu mechanics, which is a kind of generalized Hamiltonian mechanics, we can also construct structure-preserving integrators by the same procedure used to construct the symplectic integrators. In the structure-preserving integrator, however, the existence of shadow Hamiltonians is nontrivial. This is because the Nambu mechanics is driven by multiple Hamiltonians and it is nontrivial whether the time evolution by the integrator can be cast into the Nambu mechanical time evolution driven by multiple shadow Hamiltonians. In this paper we present a general procedure to calculate the shadow Hamiltonians of structure-preserving integrators for Nambu mechanics, and give an example where the shadow Hamiltonians exist. This is the first attempt to determine the concrete forms of the shadow Hamiltonians for a Nambu mechanical system. We show that the fundamental identity, which corresponds to the Jacobi identity in Hamiltonian mechanics, plays an important role in calculating the shadow Hamiltonians using the Baker-Campbell-Hausdorff formula. It turns out that the resulting shadow Hamiltonians have indefinite forms depending on how the fundamental identities are used. This is not a technical artifact, because the exact shadow Hamiltonians obtained independently have the same indefiniteness.

Linear non-Gaussian causal models postulate that each random variable is a linear function of parent variables and non-Gaussian exogenous error terms. We study identification of the linear coefficients when such models contain latent variables. Our focus is on the commonly studied acyclic setting, where each model corresponds to a directed acyclic graph (DAG). For this case, prior literature has demonstrated that connections to overcomplete independent component analysis yield effective criteria to decide parameter identifiability in latent variable models. However, this connection is based on the assumption that the observed variables linearly depend on the latent variables. Departing from this assumption, we treat models that allow for arbitrary non-linear latent confounding. Our main result is a graphical criterion that is necessary and sufficient for deciding the generic identifiability of direct causal effects. Moreover, we provide an algorithmic implementation of the criterion with a run time that is polynomial in the number of observed variables. Finally, we report on estimation heuristics based on the identification result, explore a generalization to models with feedback loops, and provide new results on the identifiability of the causal graph.

We consider the application of the generalized Convolution Quadrature (gCQ) to approximate the solution of an important class of sectorial problems. The gCQ is a generalization of Lubich's Convolution Quadrature (CQ) that allows for variable steps. The available stability and convergence theory for the gCQ requires non realistic regularity assumptions on the data, which do not hold in many applications of interest, such as the approximation of subdiffusion equations. It is well known that for non smooth enough data the original CQ, with uniform steps, presents an order reduction close to the singularity. We generalize the analysis of the gCQ to data satisfying realistic regularity assumptions and provide sufficient conditions for stability and convergence on arbitrary sequences of time points. We consider the particular case of graded meshes and show how to choose them optimally, according to the behaviour of the data. An important advantage of the gCQ method is that it allows for a fast and memory reduced implementation. We describe how the fast and oblivious gCQ can be implemented and illustrate our theoretical results with several numerical experiments.

Many state-of-the-art models trained on long-range sequences, for example S4, S5 or LRU, are made of sequential blocks combining State-Space Models (SSMs) with neural networks. In this paper we provide a PAC bound that holds for these kind of architectures with stable SSM blocks and does not depend on the length of the input sequence. Imposing stability of the SSM blocks is a standard practice in the literature, and it is known to help performance. Our results provide a theoretical justification for the use of stable SSM blocks as the proposed PAC bound decreases as the degree of stability of the SSM blocks increases.

Differential abundance analysis is a key component of microbiome studies. While dozens of methods for it exist, currently, there is no consensus on the preferred methods. Correctness of results in differential abundance analysis is an ambiguous concept that cannot be evaluated without employing simulated data, but we argue that consistency of results across datasets should be considered as an essential quality of a well-performing method. We compared the performance of 14 differential abundance analysis methods employing datasets from 54 taxonomic profiling studies based on 16S rRNA gene or shotgun sequencing. For each method, we examined how the results replicated between random partitions of each dataset and between datasets from independent studies. While certain methods showed good consistency, some widely used methods were observed to produce a substantial number of conflicting findings. Overall, the highest consistency without unnecessary reduction in sensitivity was attained by analyzing relative abundances with a non-parametric method (Wilcoxon test or ordinal regression model) or linear regression (MaAsLin2). Comparable performance was also attained by analyzing presence/absence of taxa with logistic regression.

The problems of optimal recovering univariate functions and their derivatives are studied. To solve these problems, two variants of the truncation method are constructed, which are order-optimal both in the sense of accuracy and in terms of the amount of involved Galerkin information. For numerical summation, it has been established how the parameters characterizing the problem being solved affect its stability.

Given a finite set of matrices with integer entries, the matrix mortality problem asks if there exists a product of these matrices equal to the zero matrix. We consider a special case of this problem where all entries of the matrices are nonnegative. This case is equivalent to the NFA mortality problem, which, given an NFA, asks for a word $w$ such that the image of every state under $w$ is the empty set. The size of the alphabet of the NFA is then equal to the number of matrices in the set. We study the length of shortest such words depending on the size of the alphabet. We show that this length for an NFA with $n$ states can be at least $2^n - 1$, $2^{(n - 4)/2}$ and $2^{(n - 2)/3}$ if the size of the alphabet is, respectively, equal to $n$, three and two.

We present a class of high-order Eulerian-Lagrangian Runge-Kutta finite volume methods that can numerically solve Burgers' equation with shock formations, which could be extended to general scalar conservation laws. Eulerian-Lagrangian (EL) and semi-Lagrangian (SL) methods have recently seen increased development and have become a staple for allowing large time-stepping sizes. Yet, maintaining relatively large time-stepping sizes post shock formation remains quite challenging. Our proposed scheme integrates the partial differential equation on a space-time region partitioned by linear approximations to the characteristics determined by the Rankine-Hugoniot jump condition. We trace the characteristics forward in time and present a merging procedure for the mesh cells to handle intersecting characteristics due to shocks. Following this partitioning, we write the equation in a time-differential form and evolve with Runge-Kutta methods in a method-of-lines fashion. High-resolution methods such as ENO and WENO-AO schemes are used for spatial reconstruction. Extension to higher dimensions is done via dimensional splitting. Numerical experiments demonstrate our scheme's high-order accuracy and ability to sharply capture post-shock solutions with large time-stepping sizes.

Temporal reasoning with conditionals is more complex than both classical temporal reasoning and reasoning with timeless conditionals, and can lead to some rather counter-intuitive conclusions. For instance, Aristotle's famous "Sea Battle Tomorrow" puzzle leads to a fatalistic conclusion: whether there will be a sea battle tomorrow or not, but that is necessarily the case now. We propose a branching-time logic LTC to formalise reasoning about temporal conditionals and provide that logic with adequate formal semantics. The logic LTC extends the Nexttime fragment of CTL*, with operators for model updates, restricting the domain to only future moments where antecedent is still possible to satisfy. We provide formal semantics for these operators that implements the restrictor interpretation of antecedents of temporalized conditionals, by suitably restricting the domain of discourse. As a motivating example, we demonstrate that a naturally formalised in our logic version of the `Sea Battle' argument renders it unsound, thereby providing a solution to the problem with fatalist conclusion that it entails, because its underlying reasoning per cases argument no longer applies when these cases are treated not as material implications but as temporal conditionals. On the technical side, we analyze the semantics of LTC and provide a series of reductions of LTC-formulae, first recursively eliminating the dynamic update operators and then the path quantifiers in such formulae. Using these reductions we obtain a sound and complete axiomatization for LTC, and reduce its decision problem to that of the modal logic KD.