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At least 55 records · Page 3

Bridging Hydrological Ensemble Simulation and Learning Using Deep Neural Operators

Ensemble-based simulation and learning (ESnL) has long been used in hydrology for parameter inference, but computational demands of process-based ESnL can be quite high. To address this issue, we propose a deep neural operator learning approach. Neural operators are generic machine learning algorithms that can learn functional mappings between infinite-dimensional spaces, providing a highly flexible tool for scientific machine learning. Our approach is built upon DeepONet, a specific deep neural operator, and is designed to address several common problems in hydrology, namely, model parameter estimation, prediction at ungaged locations, and uncertainty quantification. Here we demonstrate the effectiveness of our DeepONet-based workflow using an existing large model ensemble created for an eastern U.S. watershed that is instrumented with 10 streamflow gages. Results suggest DeepONet achieves high efficiency in learning an ML surrogate model from the model ensemble, with the modified Kling-Gupta Efficiency exceeding 0.9 on holdout test sets. Parameter inference, carried out using the trained DeepONet surrogate model and genetic algorithm, also yields robust results. Additionally, we formulate and train a separate DeepONet model for physics-informed, seq-to-seq streamflow forecasting, which further reduces biases in the pre-trained DeepONet surrogate model. While this study focuses primarily on a single watershed, our approach is general and may be extended to enable learning from model ensembles across multiple basins or models. Thus, this research represents a significant contribution to the application of hybrid machine learning in hydrology.

54 ENVIRONMENTAL SCIENCES↗

Combination of cluster number counts and two-point correlations: validation on mock Dark Energy Survey

ABSTRACT We present a method of combining cluster abundances and large-scale two-point correlations, namely galaxy clustering, galaxy–cluster cross-correlations, cluster autocorrelations, and cluster lensing. This data vector yields comparable cosmological constraints to traditional analyses that rely on small-scale cluster lensing for mass calibration. We use cosmological survey simulations designed to resemble the Dark Energy Survey Year 1 (DES-Y1) data to validate the analytical covariance matrix and the parameter inferences. The posterior distribution from the analysis of simulations is statistically consistent with the absence of systematic biases detectable at the precision of the DES-Y1 experiment. We compare the χ2 values in simulations to their expectation and find no significant difference. The robustness of our results against a variety of systematic effects is verified using a simulated likelihood analysis of DES-Y1-like data vectors. This work presents the first-ever end-to-end validation of a cluster abundance cosmological analysis on galaxy catalogue level simulations.

79 ASTRONOMY AND ASTROPHYSICS↗

Strong Lensing Cosmology with Population-level Calibrated Neural Ratio Estimation

Strong gravitational lensing contains key information about cosmic acceleration. Modern and next-generation galaxy imaging surveys are expected to provide high-quality data on $\mathcal{O}(10^5)$ galaxy-galaxy lensing systems. The plethora and complexity of the data are likely to present computational challenges for parameter inference methods for fitting high-dimensional likelihoods, which are often analytically intractable. Neural Ratio Estimation (NRE) efficiently computes individual likelihood ratios that can be combined into population-level posteriors. We use simulations to study the capacity of NRE to jointly predict the dark energy equation-of-state parameter $w$ and the total matter density $Ω_{m}$ from lensing images and companion spectroscopic information. We also introduce a post hoc posterior coverage calibration procedure that mitigates the model overconfidence that is typically found in neural density estimation applications. Our experiments show that the errors on both parameters decrease with increasing inference population sizes. In particular, for 100 lenses in a standard $Λ$CDM Universe, our calibrated NRE model achieves median fractional uncertainty of $22.8\%$ in $w$ and $2.9\%$ in $Ω_{m}$. This proof of concept demonstrates a potentially scalable approach for efficient cosmological parameter inference with large populations of galaxy-scale lenses observed in future surveys.

Jarugula, Sreevani [Fermilab] (ORCID:0000000253867↗

Optimal Bayesian supervised domain adaptation for RNA sequencing data

Abstract Motivation When learning to subtype complex disease based on next-generation sequencing data, the amount of available data is often limited. Recent works have tried to leverage data from other domains to design better predictors in the target domain of interest with varying degrees of success. But they are either limited to the cases requiring the outcome label correspondence across domains or cannot leverage the label information at all. Moreover, the existing methods cannot usually benefit from other information available a priori such as gene interaction networks. Results In this article, we develop a generative optimal Bayesian supervised domain adaptation (OBSDA) model that can integrate RNA sequencing (RNA-Seq) data from different domains along with their labels for improving prediction accuracy in the target domain. Our model can be applied in cases where different domains share the same labels or have different ones. OBSDA is based on a hierarchical Bayesian negative binomial model with parameter factorization, for which the optimal predictor can be derived by marginalization of likelihood over the posterior of the parameters. We first provide an efficient Gibbs sampler for parameter inference in OBSDA. Then, we leverage the gene-gene network prior information and construct an informed and flexible variational family to infer the posterior distributions of model parameters. Comprehensive experiments on real-world RNA-Seq data demonstrate the superior performance of OBSDA, in terms of accuracy in identifying cancer subtypes by utilizing data from different domains. Moreover, we show that by taking advantage of the prior network information we can further improve the performance. Availability and implementation The source code for implementations of OBSDA and SI-OBSDA are available at the following link. https://github.com/SHBLK/BSDA. Supplementary information Supplementary data are available at Bioinformatics online.

Biochemistry & Molecular Biology↗

Direct Estimation of Parameters in ODE Models Using WENDy: Weak-Form Estimation of Nonlinear Dynamics

Abstract We introduce the Weak-form Estimation of Nonlinear Dynamics (WENDy) method for estimating model parameters for non-linear systems of ODEs. Without relying on any numerical differential equation solvers, WENDy computes accurate estimates and is robust to large (biologically relevant) levels of measurement noise. For low dimensional systems with modest amounts of data, WENDy is competitive with conventional forward solver-based nonlinear least squares methods in terms of speed and accuracy. For both higher dimensional systems and stiff systems, WENDy is typically both faster (often by orders of magnitude) and more accurate than forward solver-based approaches. The core mathematical idea involves an efficient conversion of the strong form representation of a model to its weak form, and then solving a regression problem to perform parameter inference. The core statistical idea rests on the Errors-In-Variables framework, which necessitates the use of the iteratively reweighted least squares algorithm. Further improvements are obtained by using orthonormal test functions, created from a set of $$C^{\infty }$$ C ∞ bump functions of varying support sizes.We demonstrate the high robustness and computational efficiency by applying WENDy to estimate parameters in some common models from population biology, neuroscience, and biochemistry, including logistic growth, Lotka-Volterra, FitzHugh-Nagumo, Hindmarsh-Rose, and a Protein Transduction Benchmark model. Software and code for reproducing the examples is available at https://github.com/MathBioCU/WENDy .

97 MATHEMATICS AND COMPUTING↗

Probabilistic Inference of Low-Surface-Brightness Galaxy Morphological Parameters Using Simulation-Based Inference

Low-surface-brightness galaxies (LSBGs) are diffuse, often dark-matter-dominated systems whose faintness makes their structural parameters difficult to measure reliably in wide-field imaging surveys. Robust parameter inference, including uncertainty quantification, is important for population studies and for comparisons with models of galaxy formation, as future surveys are expected to produce increasingly large samples of diffuse galaxies. In practice, LSBG profile modeling is sensitive to sky- background errors, masking choices, contaminating background sources, and the computational cost of obtaining posterior-level uncertainties for large samples. Motivated by these questions, we develop a simulation-based inference (SBI) framework for estimating posterior distributions of LSBG morphological parameters from simulated galaxy images. Using PyImfit, we generate DES-like single-Sersic profile LSBG images with known position angle, ellipticity, Sersic index, effective surface brightness, and effective radius. We then train a normalizing-flow-based neural posterior estimator using the sbi package to infer these parameters from the simulated images. For isolated simulated galaxies, the SBI posterior recovers the true input parameters, produces posterior predictive residuals consistent with the assumed noise model, and shows good empirical calibration in a DES-motivated test regime. We also compare SBI with PyImfit-based MCMC inference and find broadly comparable posterior constraints, while SBI enables substantially faster posterior sampling after training. Finally, we test robustness to compact background contaminants. A model trained only on isolated galaxies produces undercovered posteriors on contaminated images, whereas training on simulations with variable contaminant positions and fluxes improves calibration across contaminated test sets. These results demonstrate the promise of SBI for scalable, uncertainty-aware LSBG morphology inference, while emphasizing that posterior reliability strongly depends on whether training simulations include relevant observational complications.

Batbayar, Bilguun [U. Chicago (main)]↗

Bayesian Inference of the Symmetry Energy of Superdense Neutron-rich Matter from Future Radius Measurements of Massive Neutron Stars

In this work, using as references the posterior probability distribution functions of the equation of state (EOS) parameters inferred from the radii of canonical neutron stars (NSs) reported by the LIGO/VIRGO and NICER Collaborations based on their observations of GW170817 and PSR J0030+0451, we investigate how future radius measurements of more massive NSs will improve our current knowledge about the EOS of superdense neutron-rich nuclear matter, especially its symmetry energy term. Within the Bayesian statistical approach using an explicitly isospin-dependent parametric EOS for the core of NSs, we infer the EOS parameters of superdense neutron-rich nuclear matter from three sets of imagined mass–radius correlation data representing typical predictions by various nuclear many-body theories, that is, the radius stays the same, decreases, or increases with increasing NS mass within ±15% between 1.4 and 2.0 M$_\odot$. The corresponding NS average density increases quickly or slowly or slightly decreases as the NS mass increases from 1.4 to 2.0 M$_\odot$. While the EOSs of symmetric nuclear matter (SNM) inferred from the three data sets are approximately the same, the corresponding symmetry energies above about twice the saturation density of nuclear matter are very different, indicating that the radii of massive NSs carry important information about the high-density behavior of nuclear symmetry energy with little influence from the remaining uncertainties of the SNM EOS at suprasaturation densities.

79 ASTRONOMY AND ASTROPHYSICS↗

Sensitivity-Informed Bayesian Inference for Home PLC Network Models with Unknown Parameters

Bayesian inference is used to calibrate a bottom-up home PLC network model with unknown loads and wires at frequencies up to 30 MHz. A network topology with over 50 parameters is calibrated using global sensitivity analysis and transitional Markov Chain Monte Carlo (TMCMC). The sensitivity-informed Bayesian inference computes Sobol indices for each network parameter and applies TMCMC to calibrate the most sensitive parameters for a given network topology. A greedy random search with TMCMC is used to refine the discrete random variables of the network. This results in a model that can accurately compute the transfer function despite noisy training data and a high dimensional parameter space. The model is able to infer some parameters of the network used to produce the training data, and accurately computes the transfer function under extrapolative scenarios.

42 ENGINEERING↗

Inferring Reliability Model Parameters from Expert Opinion

Here, we propose a method for constructing bathtub models of reliability from opinion. The method is intended for reliability studies early in the design and prototyping of a new system, before data concerning reliability has become available. A stylized bathtub curve is presented for soliciting best engineering judgement from technical experts. By pooling these stylized curves, we produce data that can be used to infer parameters for a piece-wise Weibull model of reliability. A numerical example demonstrates the practicality of the method while also highlighting potential pitfalls when working with subjective data.

42 ENGINEERING↗

BatFIT (Battery Feature Inference Toolbox) [SWR-26-034]

This package implements several data-based techniques for parameter fitting in Li-ion battery models. It uses BATMODS-lite to generate the data . The repository contains the code that is used for the paper "Neural posterior estimation is accurate, tractable and scalable for inverse parameter inference in Li-ion batteries", M. Hassanaly, C. R. Randall, P. J. Weddle, P. J. Gasper, C. Kelly, T. R. Tanim, K. Smith.

Hassanaly, Malik [National Laboratory of the Rocki↗

A mechanistic model for creep and thermal aging in Alloy 709

This report describes a physics-based model for creep and thermal aging in Alloy 709. Alloy 709 is an advanced austenitic alloy, targeted for use in future Sodium Fast Reactors (SFRs) and other advanced reactors. The material has superior high temperature properties compared to currently qualified 316 and 304 stainless steels. However, the available creep and thermal aging test database for Alloy 709 is significantly more limited compared to the historical materials. The physics-based model developed here is one way to accelerate the qualification of the material by providing more accurate long-term predictions for creep properties and thermal aging, compared to current empirical time-extrapolate techniques. The crystal plasticity finite element model is used to predict the deformation and failure of alloy 709. The same setup for the CPFE model is used in both the baseline model calibration process and the simulation campaigns for parameter inference. Specific constitutive choices are made for Alloy 709 to capture the primary deformation mechanisms. The dislocation creep formulation developed by Hu and Cocks is extended to account for coupled precipitation formation and the grain boundary cavitation model developed by Sham, Needleman, et al. is used to model grain boundary cavitation-induced failure. A novel update algorithm is proposed to render the semi-discrete constitutive update for the Sham-Needleman model unconditionally stable. A progressive calibration approach is adopted based on the observations that several types of material responses can be effectively decoupled. A surrogate model is trained based on full-fledged CPFE simulations to accelerate the forward model evaluations, and stochastic variational inference (SVI) is used to calibrate the unknown microstructural model parameters. The calibrated mechanistic model is used to predict the long-term creep life of Alloy 709, and the predictions are compared against classical empirical approaches.

36 MATERIALS SCIENCE↗

Bias on tensor-to-scalar ratio inference with estimated covariance matrices

ABSTRACT We investigate simulation-based bandpower covariance matrices commonly used in cosmological parameter inferences such as the estimation of the tensor-to-scalar ratio r. We find that upper limits on r can be biased low by tens of per cent. The underestimation of the upper limit is most severe when the number of simulation realizations is similar to the number of observables. Convergence of the covariance-matrix estimation can require a number of simulations an order of magnitude larger than the number of observables, which could mean $\mathcal {O}(10\ 000)$ simulations. This is found to be caused by an additional scatter in the posterior probability of r due to Monte Carlo noise in the estimated bandpower covariance matrix, in particular, by spurious non-zero off-diagonal elements. We show that matrix conditioning can be a viable mitigation strategy in the case that legitimate covariance assumptions can be made.

79 ASTRONOMY AND ASTROPHYSICS↗

Goal-oriented real-time Bayesian inference for linear autonomous dynamical systems with application to digital twins for tsunami early warning

We present a goal-oriented framework for constructing digital twins with the following properties: (1) they employ discretizations of high-fidelity partial differential equation (PDE) models governed by autonomous dynamical systems, leading to large-scale forward problems; (2) they solve a linear inverse problem to assimilate observational data to infer uncertain model components followed by a forward prediction of the evolving dynamics; and (3) the entire end-to-end, data-to-inference-to-prediction computation is carried out without approximation and in real time through a Bayesian framework that rigorously accounts for uncertainties. Several challenges must be overcome to realize this framework, including the large scale of the forward problem, the high dimensionality of the parameter space, and for a class of problems including those we target, the slow decay of the singular values of the parameter-to-observable map. Here we introduce a methodology to overcome these challenges by exploiting the autonomous structure of the forward model to decompose the solution of the inverse problem into a one-time-only offline phase in which the PDE model is solved a limited number of times (equal to the number of sensors), and an online phase that maps well onto GPUs and computes the parameter inference and prediction of quantities of interest in real time, given observational data. Our ultimate goal is to apply this framework to construct digital twins for subduction zones, including Cascadia, to provide early warning for tsunamis generated by megathrust earthquakes. To this end, we demonstrate how our methodology can be used to employ seafloor pressure observations, along with the coupled acoustic–gravity wave equations, to infer the earthquake-induced spatiotemporal seafloor motion (discretized with $\mathscr{O}$ (10 9 ) parameters) and forward predict the tsunami propagation. We present results of an end-to-end inference, prediction, and uncertainty quantification for a representative test problem with $\mathscr{O}$ (10 8 ) inversion parameters for which goal-oriented Bayesian inference is accomplished exactly and in real time, that is, in a matter of seconds.

97 MATHEMATICS AND COMPUTING↗

FolpsD: combining EFT and phenomenological approaches for joint power spectrum and bispectrum analyses

We present a theoretical model for the power spectrum and bispectrum of galaxy clustering that exploits the complementarity between small-scale power spectrum information and large-scale bispectrum measurements. We extend the FOLPS code by combining its one-loop EFT galaxy power spectrum with a tree-level galaxy bispectrum projected onto the tripolar spherical harmonics (Sugiyama) basis. To access additional small-scale information, we also consider a line-of-sight damping factor in both statistics, mirroring approaches commonly used in studies of redshift-space distortions. We test the model using DESI DR2 galaxy mocks. Even without damping, the joint analysis of the EFT power spectrum and bispectrum significantly improves constraints and reduces parameter degeneracies relative to power spectrum analyses alone. For LRG-like samples, including the damping further extends the range beyond $k\sim 0.3 \,h \text{Mpc}^{-1}$ in the power spectrum and $k \sim 0.24 \,h \text{Mpc}^{-1}$ in the bispectrum without introducing statistically significant parameter biases. This leads to up to $\sim 30\%$ tighter constraints on $A_s$ and $ω_{cdm}$. For low signal-to-noise tracers such as QSOs, however, the damping parameters are weakly constrained and can absorb noise fluctuations, leading to shifts in inferred parameters. Similar limitations may arise in models where cosmological information is encoded in power-spectrum shape features degenerate with the damping, such as scenarios with massive neutrinos. In contrast, for $w_0w_a$CDM we obtain $15\%$ and $21\%$ tighter constraints on $w_0$ and $w_a$, respectively, yielding a deviation from constant dark energy at slightly more than the $1σ$ level using full-shape information alone. The code is publicly available at https://github.com/cosmodesi/FolpsD

Bansal, P. [Michigan U., MCTP; Michigan U.] (ORCID↗

Flood hazard model calibration using multiresolution model output

Riverine floods pose a considerable risk to many communities. Improving flood hazard projections has the potential to inform the design and implementation of flood risk management strategies. Current flood hazard projections are uncertain, especially due to uncertain model parameters. Calibration methods use observations to quantify model parameter uncertainty. With limited computational resources, researchers typically calibrate models using either relatively few expensive model runs at high spatial resolutions or many cheaper runs at lower spatial resolutions. This leads to an open question: is it possible to effectively combine information from the high and low resolution model runs? We propose a Bayesian emulation–calibration approach that assimilates model outputs and observations at multiple resolutions. As a case study for a riverine community in Pennsylvania, we demonstrate our approach using the LISFLOOD-FP flood hazard model. Here, the multiresolution approach results in improved parameter inference over the single resolution approach in multiple scenarios. Results vary based on the parameter values and the number of available models runs. Our method is general and can be used to calibrate other high dimensional computer models to improve projections.

multiresolution↗

Efficient Bayesian inference with latent Hamiltonian neural networks in No-U-Turn Sampling

When sampling for Bayesian inference, one popular approach in the computational field is to use Hamiltonian Monte Carlo (HMC) and specifically the No-U-Turn Sampler (NUTS), which automatically decides the end time of the Hamiltonian trajectory. However, HMC and NUTS can require numerous numerical gradients of the target density and can prove slow in practice when relying on computationally expensive forward models. We propose Latent Hamiltonian neural networks (L-HNNs) with HMC and NUTS for solving Bayesian inference problems. Once trained, L-HNNs do not require numerical gradients of the target density during sampling, and hence numerous evaluations of the forward computational model. Moreover, L-HNNs satisfy important properties such as perfect time reversibility and Hamiltonian conservation, making them well-suited for use within HMC and NUTS because stationarity can be shown. We also propose the integration of L-HNNs in an online error monitoring scheme, in which numerical gradients of the target density are used for a few samples whenever the L-HNNs prediction errors are large. This online error monitor scheme prevents sample degeneracy in regions of low probability density and ensures robust uncertainty quantification. We demonstrate L-HNNs in NUTS with online error monitoring on several analytical examples involving complex, heavy-tailed, and high-local-curvature probability densities. We then demonstrate the applicability of L-HNNs in NUTS to two computational case studies, namely the Allen-Cahn stochastic partial differential equation and an elliptic partial differential equation with 25 and 50 inference parameters, respectively. Overall, the L-HNNs in NUTS with online error monitoring satisfactorily inferred these probability densities. In conclusion, compared to traditional NUTS, L-HNNs in NUTS with online error monitoring required 1–2 orders of magnitude fewer numerical gradients of the target density and improved the effective sample size (ESS) per gradient (which is a measure of both the sampling quality and the computational expense) by an order of magnitude.

97 MATHEMATICS AND COMPUTING↗

The Sixth Data Release of the Radial Velocity Experiment (Rave). II. Stellar Atmospheric Parameters, Chemical Abundances, and Distances

We present part 2 of the sixth and final Data Release (DR6) of the Radial Velocity Experiment (Rave), a magnitude-limited (9<I<12) spectroscopic survey of Galactic stars randomly selected in Earth’s southern hemisphere. The Rave medium-resolution spectra (R ∼ 7500) cover the Ca triplet region (8410–8795 Å) and span the complete time frame from the start of Rave observations on 2003 April 12 to their completion on 2013 April 4. In the second of two publications, we present the data products derived from 518,387 observations of 451,783 unique stars using a suite of advanced reduction pipelines focusing on stellar atmospheric parameters, in particular purely spectroscopically derived stellar atmospheric parameters (T{sub eff}, logg, and the overall metallicity), enhanced stellar atmospheric parameters inferred via a Bayesian pipeline using Gaia DR2 astrometric priors, and asteroseismically calibrated stellar atmospheric parameters for giant stars based on asteroseismic observations for 699 K2 stars. In addition, we provide abundances of the elements Fe, Al, and Ni, as well as an overall [α/Fe] ratio obtained using a new pipeline based on the GAUGUIN optimization method that is able to deal with variable signal-to-noise ratios. The Rave DR6 catalogs are cross-matched with relevant astrometric and photometric catalogs, and are complemented by orbital parameters and effective temperatures based on the infrared flux method. The data can be accessed via the Rave website (http://rave-survey.org) or the Vizier database.

79 ASTRONOMY AND ASTROPHYSICS↗

Using Machine Learning to Generate a GISS ModelE Calibrated Physics Ensemble (CPE)

A neural network (NN) surrogate of the NASA GISS ModelE atmosphere (version E3) is trained on a perturbed parameter ensemble (PPE) spanning 45 physics parameters and 36 outputs. The NN is leveraged in a Markov Chain Monte Carlo (MCMC) Bayesian parameter inference framework to generate a second posterior constrained ensemble coined a “calibrated physics ensemble,” or CPE. The CPE members are characterized by diverse parameter combinations and are, by definition, close to top-of-atmosphere radiative balance, and must broadly agree with numerous hydrologic, energy cycle and radiative forcing metrics simultaneously. Global observations of numerous cloud, environment, and radiation properties (provided by global satellite products) are crucial for CPE generation. The inference framework explicitly accounts for discrepancies (or biases) in satellite products during CPE generation. We demonstrate that product discrepancies strongly impact calibration of important model parameter settings (e.g., convective plume entrainment rates; fall speed for cloud ice). Structural improvements new to E3 are retained across CPE members (e.g., stratocumulus simulation). Notably, the framework improved the simulation of shallow cumulus and Amazon rainfall while not degrading radiation fields, an upgrade that neither default parameters nor Latin Hypercube parameter searching achieved. Analyses of the initial PPE suggested several parameters were unimportant for output variation. However, many “unimportant” parameters were needed for CPE generation, a result that brings to the forefront how parameter importance should be determined in PPEs. From the CPE, two diverse 45-dimensional parameter configurations are retained to generate radiatively-balanced, auto-tuned atmospheres that were used in two E3 submissions to CMIP6.

54 ENVIRONMENTAL SCIENCES↗