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All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Clustering at Massive Scale

ClaMS provides hierarchical clustering technology for use on massive, high-dimensional datasets that require distributed memory for processing. The algorithm employed is inspired by the popular HDBSCAN algorithm but makes use of computational kernels better suited for distributed computing. ClaMS is built on scalable nearest neighbor graph construction, metric forest completion, and approximate minimum spanning tree techniques.

Stanley, ThomasA [Lawrence Livermore National Labo↗
DOE OSTI2026

EvoDiffMol: evolutionary diffusion framework for 3D molecular design with optimized properties

Designing molecules with specific target properties remains a fundamental challenge in computational chemistry. While existing approaches show promise, most rely on simplified representations like SMILES strings or 2D graphs that lack essential three-dimensional geometric information. We present EvoDiffMol, a computational framework that integrates evolutionary algorithms with three-dimensional diffusion models for property-driven molecular generation. The method operates through adaptive evolutionary optimization, where population-based selection guides the generation process toward desired property landscapes. EvoDiffMol supports both unconstrained molecular design and scaffold-constrained generation that preserves fixed substructures while optimizing complementary regions. Comprehensive evaluation demonstrates exceptional performance, achieving the highest drug-likeness score (0.94) among all compared state-of-the-art methods while maintaining excellent validity, uniqueness, and novelty. Beyond single property optimization, the framework demonstrates flexible multi-property optimization capabilities, simultaneously controlling multiple molecular descriptors including synthetic accessibility, lipophilicity, topological polar surface area, and clinically relevant ADMET properties such as cardiotoxicity (hERG) and intestinal permeability (Caco-2). This adaptability spans from simple descriptors to practical pharmaceutical endpoints without requiring complete model retraining. The framework achieves precise control over target property values, generating molecules with properties closely matching specified targets for both single and multiple descriptors. Scaffold-constrained experiments preserve fixed molecular cores while maintaining effective property optimization. The three-dimensional representation offers advantages in maintaining structural validity during iterative optimization, with potential for geometry-aware applications in materials science and drug discovery.

3D molecular generation↗
DOE OSTI2022

Incoherent range-based holography of far-distant objects using LIDAR

Los Alamos National Laboratory has developed an incoherent, long-range, sub-centimeter resolution (LIDAR) with which we achieve centimeter-scale reflection holography at extremely long ranges. The system consists of a pulsed laser and photon-counting receiver. This combination yields round-trip time of flight data to illuminate parts of the object of interest. The aggregation of these data for many LIDAR pulses yields a plot with a range on the X axis and reflectance on the Y axis, which we refer to as a range profile. Observing that the range profile is a projection of the reflection map of the object onto the view vector, we collect profiles from a variety of viewing angles and invert these data to form an image. We adapt imaging algorithms from the field of computer aided tomography to suit our application and present results from imaging demonstrations at a 10 km range.

Hoffmann, Mitchell P. (ORCID:0000000170551324)↗
DOE OSTI2023

Water resource recovery modelling 2021 (WRRmod2021 conference)

Our society is transitioning fast into the digital age, spurred by development of cheap and new sensing technology, breakthroughs in computing, and development of efficient algorithms for optimization. This transition is also visible in the field of wastewater treatment and is driving new model developments, especially by exploiting the large data sets available with many utilities. Not surprisingly, WRRmod2021 had featured a strong session on ‘data-driven models and digitalization’ focused on this hot topic. At the same time, engineering practice calls for more robust models for performance evaluation and optimization of both conventional facilities and innovative processes. As a result, the WRRmod2021 program also exhibited sessions on modelling of new process units (e.g., aerobic granular sludge), modelling of the nitrogen cycle, and integrated/plant-wide modelling.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Optimizing the Accelerated Recursive Doubling Algorithm for Block Tridiagonal Systems of Equations

The need to solve block tridiagonal systems with hundreds or thousands of right-hand sides for the same block tridiagonal matrix is common in a variety of disciplines. To meet this need, the Accelerated Recursive Doubling Algorithm was developed. After a right-hand side independent phase, the algorithm allows for the quick, online calculation of solutions for different right-hand sides. In this work, we present methods to optimize the Accelerated Recursive Doubling Algorithm in memory usage and computation time in a hybrid parallelization model. The right-hand side independent phase of the naïve implementation takes ≥ 11/3 the amount of memory required to store the tridiagonal matrix, while our implementation reduces the fraction to ≈ 5/3 . The right-hand side dependent phase of the naïve implementation takes ≥ 6 times the amount of memory required to store the right-hand side, while our implementation reduces the fraction to ≈ 3. The computation time for the independent phase is reduced to ≈ 2/3 times that of the naïve implementation, while the computation time for the dependent phase is reduced to ≈ 5/9 . With increasing numbers of shared-memory threads q on every distributed processing element, we have O(q) theoretical speedup.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

DeepMerge: Studying Distant Merging Galaxies with Deep Neural Networks

The hierarchical merging of galaxies is a probe of the cosmos to test the canonical ?CDM cosmology paradigm. A particularly interesting period is "cosmic high noon" at redshifts z? 2?3, during which star formation rates were the highest, and significant amounts of stellar mass assembled into galaxy-scale bodies. Detecting galaxy mergers in observations by conventional automated methods (which use extracted parameters of galaxy structure - asymmetry, clumpiness, concentration etc.) or by visual inspection has proven to be quite time-consuming and prone to errors. Convolutional Neural Network (CNNs) are a primary representative of deep learning algorithms which are used in computer vision tasks by training to detect features in images. CNNs were already used for classification of low-redshift merging galaxies [1, 2]. Here we will use CNN to to learn directly from images (without the need to extract morphology parameters) of distant merging galaxies in order to distinguish between merging and non-merging objects.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2025

SCORE (Synthesis of COnsists as Rolling Energy microgrids) (Final Technical Report)

The SCORE toolset is an open source, web-based application to assess the impact of new powering technologies on railroad performance, specifically technologies capable of both putting power into the rail (motive force) and taking power from the rail (regeneration). SCORE’s primary goal is generate trade studies to analyze different powering and train make-up options to minimize energy usage and greenhouse gas generation. At the core of generating these trade spaces is calculating the optimal powering policy for the train given the makeup of the train, the route, and time constraints. This paper presents details on the algorithms used in SCORE to compute this powering policies that is fast and accurate, discusses its implementation in an Energy-Longitudinal Train Dynamics (E-LTD) model, compares it to naïve approaches, and demonstrates its use across a variety of train/route pairs.

24 POWER TRANSMISSION AND DISTRIBUTION↗
DOE OSTI2025

High-Throughput Characterization Tools/Algorithms To Outline Porosity Variability in AM Samples as a Function of Processing Conditions

This report documents the development and deployment of advanced algorithms and tools that enable high-throughput characterization for metal additive manufacturing (AM), with a particular focus on process parameter optimization and material/part qualification for nuclear applications. While the method ologies presented support diverse characterization techniques, the majority of the work is centered on AI-driven algorithms for X-ray computed tomography (XCT) to accelerate defect detection and materials analysis at scale.

36 MATERIALS SCIENCE↗
DOE OSTI2025

G2PDeep-v2: A Web-Based Deep-Learning Framework for Phenotype Prediction and Biomarker Discovery for All Organisms Using Multi-Omics Data

Multi-omics data offers rich insights into complex traits across organisms, yet integrating and analyzing these datasets for phenotype prediction and marker discovery remains challenging. Researchers need accessible tools that combine deep learning, hyperparameter optimization, visualization, and downstream analysis in a unified web platform. To address this, we developed G2PDeep-v2, a web-based platform powered by deep learning for phenotype prediction and marker discovery from multi-omics data across a wide range of organisms, including humans and plants. The server provides multiple services for researchers to create deep-learning models through an interactive interface and train these models using an automated hyperparameter tuning algorithm on high-performance computing resources. Users can visualize the results of phenotype and markers predictions and perform Gene Set Enrichment Analysis for the significant markers to provide insights into the molecular mechanisms underlying complex diseases, conditions and other biological phenotypes being studied.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Integration of Total-Sky Imager Data with a Physics-Based Smart Persistence Model for Intra-Hour Forecasting of Solar Radiation

Short-term solar forecasting models based solely on global horizontal irradiance (GHI) measurements are often unable to discriminate the forecasting of the factors affecting GHI from those that can be precisely computed by atmospheric models. Our previous study introduced a Physics-based Smart Persistence model for Intra-hour forecasting of solar radiation (PSPI) that decomposed the forecasting of GHI into the computation of extraterrestrial solar radiation and solar zenith angle and the forecasting of cloud albedo and cloud fraction. The extraterrestrial solar radiation and solar zenith angle were accurately computed by the Solar Position Algorithm (SPA) developed at the National Renewable Energy Laboratory (NREL). A cloud retrieval technique was used to estimate cloud albedo and cloud fraction from surface-based observations of GHI. With the assumption of persistent cloud structures, the cloud albedo and cloud fraction were predicted for future time steps using a two-stream approximation and a 5-minute exponential weighted moving average, respectively. The model evaluation indicated the estimation and forecast of cloud fraction mostly contributed to the uncertainty of the PSPI though it overcame the persistence and smart persistence models in all forecast time horizons between 5 and 60 minutes. This study aims to enhance the PSPI by ingesting surface-based observations of cloud fraction from a total sky imager (TSI). The estimation and forecast of cloud albedo is correspondingly improved by utilizing the cloud fraction observations and thus leads to more accurate GHI forecast. Various time-series analysis methods are also investigated on the forecasting of cloud fraction and cloud albedo for further improving the GHI forecast. These improvements are valuable for many applications, such as forecasting energy use for buildings, grid operations, and ultimately bringing down the cost of solar energy.

14 SOLAR ENERGY↗
DOE OSTI2020

Approximate Inverse Chain Preconditioner: Iteration Count Case Study for Spectral Support Solvers

As the growing availability of computational power slows, there has been an increasing reliance on algorithmic advances. However, faster algorithms alone will not necessarily bridge the gap in allowing computational scientists to study problems at the edge of scientific discovery in the next several decades. Often, it is necessary to simplify or precondition solvers to accelerate the study of large systems of linear equations commonly seen in a number of scientific fields. Preconditioning a problem to increase efficiency is often seen as the best approach; yet, preconditioners which are fast, smart, and efficient do not always exist. Following the progress of [1], we present a new preconditioner for symmetric diagonally dominant (SDD) systems of linear equations. These systems are common in certain PDEs, network science, and supervised learning among others. Based on spectral support graph theory, this new preconditioner builds off of the work of [2], computing and applying a V-cycle chain of approximate inverse matrices. This preconditioner approach is both algebraic in nature as well as hierarchically-constrained depending on the condition number of the system to be solved. Due to its generation of an Approximate Inverse Chain of matrices, we refer to this as the AIC preconditioner. We further accelerate the AIC preconditioner by utilizing precomputations to simplify setup and multiplications in the con-text of an iterative Krylov-subspace solver. While these iterative solvers can greatly reduce solution time, the number of iterations can grow large quickly in the absence of good preconditioners. Initial results for the AIC preconditioner have shown a very large reduction in iteration counts for SDD systems as compared to standard preconditioners such as Incomplete Cholesky (ICC) and Multigrid (MG). We further show significant reduction in iteration counts against the more advanced Combinatorial Multigrid (CMG) preconditioner. We have further developed no-fill sparsification techniques to ensure that the computational cost of applying the AIC preconditioner does not grow prohibitively large as the depth of the V-cycle grows for systems with larger condition numbers. Our numerical results have shown that these sparsifiers maintain the sparsity structure of our system while also displaying significant reductions in iteration counts.1 2

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

Approximate Inverse Chain Preconditioner: Iteration Count Case Study for Spectral Support Solvers

As the growing availability of computational power slows, there has been an increasing reliance on algorithmic advances. However, faster algorithms alone will not necessarily bridge the gap in allowing computational scientists to study problems at the edge of scientific discovery in the next several decades. Often, it is necessary to simplify or precondition solvers to accelerate the study of large systems of linear equations commonly seen in a number of scientific fields. Preconditioning a problem to increase efficiency is often seen as the best approach; yet, preconditioners which are fast, smart, and efficient do not always exist. Following the progress of [1], we present a new preconditioner for symmetric diagonally dominant (SDD) systems of linear equations. These systems are common in certain PDEs, network science, and supervised learning among others. Based on spectral support graph theory, this new preconditioner builds off of the work of [2], computing and applying a V-cycle chain of approximate inverse matrices. This preconditioner approach is both algebraic in nature as well as hierarchically-constrained depending on the condition number of the system to be solved. Due to its generation of an Approximate Inverse Chain of matrices, we refer to this as the AIC preconditioner. We further accelerate the AIC preconditioner by utilizing precomputations to simplify setup and multiplications in the con-text of an iterative Krylov-subspace solver. While these iterative solvers can greatly reduce solution time, the number of iterations can grow large quickly in the absence of good preconditioners. Initial results for the AIC preconditioner have shown a very large reduction in iteration counts for SDD systems as compared to standard preconditioners such as Incomplete Cholesky (ICC) and Multigrid (MG). We further show significant reduction in iteration counts against the more advanced Combinatorial Multigrid (CMG) preconditioner. We have further developed no-fill sparsification techniques to ensure that the computational cost of applying the AIC preconditioner does not grow prohibitively large as the depth of the V-cycle grows for systems with larger condition numbers. Our numerical results have shown that these sparsifiers maintain the sparsity structure of our system while also displaying significant reductions in iteration counts.1 2

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2022

PI3NN: Out-of-distribution-aware Prediction Intervals from Three Neural Networks

We propose a novel prediction interval (PI) method for uncertainty quantification, which addresses three major issues with the state-of-the-art PI methods. First, existing PI methods require retraining of neural networks (NNs) for every given confidence level and suffer from the crossing issue in calculating multiple PIs. Second, they usually rely on customized loss functions with extra sensitive hyperparameters for which fine tuning is required to achieve a well-calibrated PI. Third, they usually underestimate uncertainties of out-of-distribution (OOD) samples leading to over-confident PIs. Our PI3NN method calculates PIs from linear combinations of three NNs, each of which is independently trained using the standard mean squared error loss. The coefficients of the linear combinations are computed using root-finding algorithms to ensure tight PIs for a given confidence level. We theoretically prove that PI3NN can calculate PIs for a series of confidence levels without retraining NNs and it completely avoids the crossing issue. Additionally, PI3NN does not introduce any unusual hyperparameters resulting in a stable performance. Furthermore, we address OOD identification challenge by introducing an initialization scheme which provides reasonably larger PIs of the OOD samples than those of the in-distribution samples. Benchmark and real-world experiments show that our method outperforms several state-of-the-art approaches with respect to predictive uncertainty quality, robustness, and OOD samples identification.

Liu, Siyan↗
DOE OSTI2025

Quantum approximate multi-objective optimization

The goal of multi-objective optimization is to understand optimal trade-offs between competing objective functions by finding the Pareto front, that is, the set of all Pareto-optimal solutions, where no objective can be improved without degrading another one. Multi-objective optimization can be challenging classically, even if the corresponding single-objective optimization problems are efficiently solvable. Thus, multi-objective optimization represents a compelling problem class to analyze with quantum computers. Here we use a low-depth quantum approximate optimization algorithm to approximate the optimal Pareto front of certain multi-objective weighted maximum-cut problems. We demonstrate its performance on an IBM Quantum computer, as well as with matrix product state numerical simulation, and show its potential to outperform classical approaches.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2022

Hierarchical Optimal Power Flow with Improved Gradient Evaluation

Existing algorithms to solve alternating-current optimal power flow (AC-OPF) often exploit linear approximations to simplify system models and accelerate computations. In this paper, we improve a recent hierarchical OPF algorithm, which rested on primal-dual gradients evaluated in a linearized distribution power flow model. Specifically, we identify a risk of voltage violation arising from the model linearization, and propose a more accurate gradient evaluation method to eliminate that risk. We further develop a hierarchical primal-dual algorithm to solve OPF based on the proposed gradient evaluation method. Numerical results on IEEE networks show that our algorithm can enhance voltage safety with satisfactory computational efficiency.

distributed algorithm↗
DOE OSTI2021

A survey of numerical linear algebra methods utilizing mixed-precision arithmetic

The efficient utilization of mixed-precision numerical linear algebra algorithms can offer attractive acceleration to scientific computing applications. Especially with the hardware integration of low-precision special-function units designed for machine learning applications, the traditional numerical algorithms community urgently needs to reconsider the floating point formats used in the distinct operations to efficiently leverage the available compute power. In this study, we provide a comprehensive survey of mixed-precision numerical linear algebra routines, including the underlying concepts, theoretical background, and experimental results for both dense and sparse linear algebra problems.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2026

Machine Learning for Fairness-Aware Load Shedding: A Real-Time Solution via Identifying Binding Constraints: Preprint

Timely and effective load shedding in power systems is critical for maintaining supply-demand balance and preventing cascading blackouts. To eliminate load shedding bias against specific regions in the system, optimization-based methods are uniquely positioned to help balance between economic and fairness considerations. However, the resulting optimization problem involves complex constraints, which can be time-consuming to solve and thus cannot meet the real-time requirements of load shedding. To tackle this challenge, in this paper we present an efficient machine learning algorithm to enable millisecond-level computation for the optimization-based load shedding problem. Numerical studies on both a 3-bus toy example and a realistic RTS-GMLC system have demonstrated the validity and efficiency of the proposed algorithm for delivering fairness-aware and real-time load shedding decisions.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2023

On the Approximability of Random-Hypergraph MAX-3-XORSAT Problems with Quantum Algorithms

Constraint satisfaction problems are an important area of computer science. Many of these problems are in the complexity class NP which is exponentially hard for all known methods, both for worst cases and often typical. Fundamentally, the lack of any guided local minimum escape method ensures the hardness of both exact and approximate optimization classically, but the intuitive mechanism for approximation hardness in quantum algorithms based on Hamiltonian time evolution is poorly understood. We explore this question using the prototypically hard MAX-3-XORSAT problem class. We conclude that the mechanisms for quantum exact and approximation hardness are fundamentally distinct. We qualitatively identify why traditional methods such as quantum adiabatic optimization are not good approximation algorithms. We propose a new spectral folding optimization method that does not suffer from these issues and study it analytically and numerically. We consider random rank-3 hypergraphs including extremal planted solution instances, where the ground state satisfies an anomalously high fraction of constraints compared to truly random problems. We show that, if we define the energy to be $E = N_{unsat}-N_{sat}$, then spectrally folded quantum optimization will return states with energy $E \leq A E_{GS}$ (where $E_{GS}$ is the ground state energy) in polynomial time, where conservatively, $A \simeq 0.6$. We thoroughly benchmark variations of spectrally folded quantum optimization for random classically approximation-hard (planted solution) instances in simulation, and find performance consistent with this prediction. We do not claim that this approximation guarantee holds for all possible hypergraphs, though our algorithm's mechanism can likely generalize widely. These results suggest that quantum computers are more powerful for approximate optimization than had been previously assumed.

Kapit, Eliot↗