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At least 1,117 records · Page 62

The Neurodata Without Borders ecosystem for neurophysiological data science

The neurophysiology of cells and tissues are monitored electrophysiologically and optically in diverse experiments and species, ranging from flies to humans. Understanding the brain requires integration of data across this diversity, and thus these data must be findable, accessible, interoperable, and reusable (FAIR). This requires a standard language for data and metadata that can coevolve with neuroscience. We describe design and implementation principles for a language for neurophysiology data. Our open-source software (Neurodata Without Borders, NWB) defines and modularizes the interdependent, yet separable, components of a data language. We demonstrate NWB’s impact through unified description of neurophysiology data across diverse modalities and species. NWB exists in an ecosystem, which includes data management, analysis, visualization, and archive tools. Thus, the NWB data language enables reproduction, interchange, and reuse of diverse neurophysiology data. More broadly, the design principles of NWB are generally applicable to enhance discovery across biology through data FAIRness.

59 BASIC BIOLOGICAL SCIENCES↗

GeoThermalCloud for EGS – An Open-source, User-friendly, Scalable AI Workflow for Modeling Enhanced Geothermal Systems

Enhanced Geothermal Systems (EGS) offer a vast potential to expand the use of geothermal energy. Heat is extracted from this engineered system by injecting relatively cold water into subsurface fractures, which are in contact with hot dry rock, and brought back to surface through production wells. Creating EGS requires improving the natural permeability of hot crystalline rocks. In this short conference paper, we present a reproducible workflow for modeling EGS. Our workflow called the GeoThermalCloud (GTC) for EGS, leverages recent advances in machine learning, deep learning, and high-performance computing. This GTC framework is currently being made open-source, user-friendly, and reproducible through python scripts as well as Google Colab/Jupyter Notebooks. This GTC for EGS modeling scripts are made available at https://github.com/SmartTensors/GeoThermalCloud.jl/tree/master/EGS and will constantly be updated to cater for geothermal community. Current GTC framework provides scripts to train deep learning (DL) models for techno-economics and data worth analysis. The Geothermal Design Tool (https://github.com/GeoDesignTool/GeoDT.git), a fast and simplified multi-physics solver, is used to develop a database for training DL models. This short paper provides details on the scripts to curate, process, and train DL models. The scripts can easily be modified to train on databases generated by other popular open-source simulators such as PFLOTRAN, STOMP, TOUGH, and GEOSX or commercial software such as ResFrac and COMSOL.

15 GEOTHERMAL ENERGY↗

Accelerating detector simulations with Celeritas: profiling and performance optimizations

Celeritas is a GPU-optimized MC particle transport code designed to meet the growing computational demands of next-generation HEP experiments. It provides efficient simulation of EM physics processes in complex geometries with magnetic fields, detector hit scoring, and seamless integration into Geant4-driven applications to offload EM physics to GPUs. Recent efforts have focused on performance optimizations and expanding profiling capabilities. This paper presents some key advancements, including the integration of the Perfetto system profiling tool for detailed performance analysis and the development of track-sorting methods to improve computational efficiency.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Analysis of the High Temperature Engineering Test Reactor Using MOOSE Tools

This presentation shows the development of neutronics and thermal hydraulics models of the High Temperature Engineering Test Reactor using codes in the Multiphysics Object Oriented Simulation Environment. We show preliminary results of full-power steady state and a loss of forced cooling transient from that steady state.

21 - SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLAN↗

Refining HPCToolkit for application performance analysis at exascale

As part of the US Department of Energy’s Exascale Computing Project (ECP), Rice University has been refining its HPCToolkit performance tools to better support measurement and analysis of applications executing on exascale supercomputers. To efficiently collect performance measurements of GPU-accelerated applications, HPCToolkit employs novel non-blocking data structures to communicate performance measurements between tool threads and application threads. To attribute performance information in detail to source lines, loop nests, and inlined call chains, HPCToolkit performs parallel analysis of large CPU and GPU binaries involved in the execution of an exascale application to rapidly recover mappings between machine instructions and source code. To analyze terabytes of performance measurements gathered during executions at exascale, HPCToolkit employs distributed-memory parallelism, multithreading, sparse data structures, and out-of-core streaming analysis algorithms. To support interactive exploration of profiles up to terabytes in size, HPCToolkit’s hpcviewer graphical user interface uses out-of-core methods to visualize performance data. The result of these efforts is that HPCToolkit now supports collection, analysis, and presentation of profiles and traces of GPU-accelerated applications at exascale. These improvements have enabled HPCToolkit to efficiently measure, analyze and explore terabytes of performance data for executions using as many as 64K MPI ranks and 64K GPU tiles on ORNL’s Frontier supercomputer. HPCToolkit’s support for measurement and analysis of GPU-accelerated applications has been employed to study a collection of open-science applications developed as part of ECP. This paper reports on these experiences, which provided insight into opportunities for tuning applications, strengths and weaknesses of HPCToolkit itself, as well as unexpected behaviors in executions at exascale.

Adhianto, Laksono↗

Analytical Action Level Calculator in Turbo FRMAC (FY2020 Close-Out) [Slides]

Objectives: Automate the labor-intensive process of generating Analytical Action Levels (AALs) in Turbo FRMAC to shorten the timeline for planning sampling campaigns and sample analysis during a response. Make the tool output results in a format that is easily imported to RadResponder as a Mixture for use in Analysis Request Forms. Deliver training to EPA on using this new tool in Turbo FRMAC (Delayed due to COVID.

42 ENGINEERING↗

PyApprox: Enabling efficient model analysis

PyApprox is a Python-based one-stop-shop for probabilistic analysis of scientific numerical models. Easy to use and extendable tools are provided for constructing surrogates, sensitivity analysis, Bayesian inference, experimental design, and forward uncertainty quantification. The algorithms implemented represent the most popular methods for model analysis developed over the past two decades, including recent advances in multi-fidelity approaches that use multiple model discretizations and/or simplified physics to significantly reduce the computational cost of various types of analyses. Simple interfaces are provided for the most commonly-used algorithms to limit a user’s need to tune the various hyper-parameters of each algorithm. However, more advanced work flows that require customization of hyper-parameters is also supported. An extensive set of Benchmarks from the literature is also provided to facilitate the easy comparison of different algorithms for a wide range of model analyses. This paper introduces PyApprox and its various features, and presents results demonstrating the utility of PyApprox on a benchmark problem modeling the advection of a tracer in ground water.

97 MATHEMATICS AND COMPUTING↗

Network Architecture Verification & Validation Tool

The NAVV Tool is an automation of Linux commands run Zeek IDS software on a packet capture to create a Microsoft Excel spreadsheet table breaking down network traffic observed. The tool automates the Zeek software analysis, the collation of logs, and then the dissection of the Conn.log and DNS.logs to create a summary table within a Excel. This spreadsheet can then be updated with network segments using CIDR formatting and labels along with inventory information including name and IP address. Using the tool again will integrate these label and color coding into the existing analysis table to aid in conducting an evaluation of the network traffic.

Nichols, DonovanW↗

Report on the Use and Function of the Integrated Operations Capability Analysis Platform (ICAP) and the LWRS Innovation Portal (IP)

The commercial nuclear power industry has achieved excellent safety and reliability performance but is struggling to survive in an electricity market that is increasingly dominated by subsidized renewables and cheap natural gas. These challenges have forced utilities to explore previously uncharted avenues to drastically reduce the operations and maintenance costs of their plants which are the primary drivers of the total cost to produce electricity. The petrochemical industry faced similar challenges some years ago as the costs of extraction and processing were rising while their reservoirs were being depleted along with a drop-in commodity prices that resulted in unsustainable operations. In this challenging climate, they developed a business model called Integrated Operations (IO) that sought to utilize technology to enable news ways of working through the integration of people, technology, process and governance changes. The Light Water Reactor Sustainability (LWRS) program, working with IFE have developed an operating model via transferable learnings from the North Sea O&G industry. This framework is termed “Integrated Operations for Nuclear” (ION). ION is a transformation model that integrates the benefits and features of four principal factors: People, Technology, Process and Governance. The purpose of this report is to describe how to generate an ION business process analysis and utilize this information to reduce O&M costs. In order to make this job easier, DOE LWRS has created a suite of tools that will allow a person who is involved in a transformation effort at their company to build a solid documented business case for embarking on a major transformation effort. These tools, the Integrated Operations Capability Analysis Model (ICAP) and the LWRS Innovation Portal (IP) are described herein with instructions on their use. Instructions on how the interface with the EPRI Business Case Analysis Method (BCAM) are also provided.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

GREET-Based Interactive Life-Cycle Assessment of Biofuel Pathways: User Manual

An interactive, web-based tool was developed to streamline the process design for biofuel pathways that the Department of Energy’s (DOE) Bioenergy Technologies Office (BETO) is developing. The tool utilizes the latest life-cycle analysis (LCA) data in the Greenhouse gases, Regulated Emissions, and Energy use in Technologies (GREET) model developed by Argonne National Laboratory (Argonne National Laboratory, 2021). It provides techno-economic analysis (TEA) modelers with a interative interface that generates real-time LCA results based on life-cycle inventory (LCI) data and generates useful insights into key emissions drivers. Economic implications of the LCA results are also included in the tool. Overall, the tool aims to assist TEA researchers with the development of economically viable and environmentally beneficial biofuel technologies. This manual introduces the interface and analysis capabilities of the tool.

09 BIOMASS FUELS↗

A deep generative model for deciphering cellular dynamics and in silico drug discovery in complex diseases

Human diseases are characterized by intricate cellular dynamics. Single-cell transcriptomics provides critical insights, yet a persistent gap remains in computational tools for detailed disease progression analysis and targeted in silico drug interventions. Here we introduce UNAGI, a deep generative neural network tailored to analyse time-series single-cell transcriptomic data. This tool captures the complex cellular dynamics underlying disease progression, enhancing drug perturbation modelling and screening. When applied to a dataset from patients with idiopathic pulmonary fibrosis, UNAGI learns disease-informed cell embeddings that sharpen our understanding of disease progression, leading to the identification of potential therapeutic drug candidates. Validation using proteomics reveals the accuracy of UNAGI’s cellular dynamics analysis, and the use of the fibrotic cocktail-treated human precision-cut lung slices confirms UNAGI’s predictions that nifedipine, an antihypertensive drug, may have anti-fibrotic effects on human tissues. UNAGI’s versatility extends to other diseases, including COVID, demonstrating adaptability and confirming its broader applicability in decoding complex cellular dynamics beyond idiopathic pulmonary fibrosis, amplifying its use in the quest for therapeutic solutions across diverse pathological landscapes.

Neural Network↗

Near-Real-Time Statistical Analysis and Visualization of Streamflow from a Deep-Learning Rainfall-Runoff Model

Near-real-time (NRT) streamflow data are critical importance for timely water resources management. Here, we developed an open-source tool, FlowStats, for NRT streamflow analysis and visualization in Germany, based on NRT meteorological data from the German Weather Service and simulated streamflow from a long short-term memory neural network (LSTM). The LSTM model achieved very good overall performance, median NSE of 0.80 for the test period across 1,479 catchments. FlowStats provides options for deriving various streamflow statistics, from normal and abnormal streamflow detection to drought and flood analyses. An example analysis from FlowStats revealed widespread below-normal to extreme low-flow conditions across Germany from March to May 2025, which weakened from June to September 2025. Drought analysis for September 2025 highlighted severe to extreme drought conditions in northwestern Germany, while flood classifications indicated that high-flow events occurred in southwestern Germany. FlowStats can be used for various hydrological assessments to support water resources management.

Hydrological modeling↗

Simplifying Geospatial Workflows with GeoGridFusion

Growing demands to understand PV deployment and reliability across an expanding range of climates, along with increasing computational power, are driving the need for simplified computing tools that support large-scale analysis and geospatial workflows. While existing open-source libraries and PV system modeling tools offer extensive collections of empirical and physical models, they often lack the ability to scale to large geospatial datasets. The tool presented here, GeoGridFusion, enables PV modelers to store and utilize gridded geospatial data from sources such as NSRDB, PVGIS, and others. GeoGridFusion harmonizes diverse datasets, taxonomies, and nomenclatures, and includes utilities that support intuitive geospatial area selection.

14 SOLAR ENERGY↗

Constraints on Future Analysis Metadata Systems in High Energy Physics

In high energy physics (HEP), analysis metadata comes in many forms—from theoretical cross-sections, to calibration corrections, to details about file processing. Correctly applying metadata is a crucial and often time-consuming step in an analysis, but designing analysis metadata systems has historically received little direct attention. Among other considerations, an ideal metadata tool should be easy to use by new analysers, should scale to large data volumes and diverse processing paradigms, and should enable future analysis reinterpretation. This document, which is the product of community discussions organised by the HEP Software Foundation, categorises types of metadata by scope and format and gives examples of current metadata solutions. Important design considerations for metadata systems, including sociological factors, analysis preservation efforts, and technical factors, are discussed. A list of best practices and technical requirements for future analysis metadata systems is presented. These best practices could guide the development of a future cross-experimental effort for analysis metadata tools.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

SCALE Sensitivity Tutorial [Slides]

In sensitivity analysis, we seek to quantify the degree to which fundamental data (i.e., nuclear data) influence a system’s response. In uncertainty analysis, we seek to quantify the degree to which uncertainty in fundamental data contributes to uncertainty in a system’s response. In SCALE, the TSUNAMI suite provides tools for sensitivity and uncertainty analysis, similarity analysis, and nuclear data and covariance adjustment.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE Data Day 2019 Report

The Department of Energy (DOE) has joined the larger scientific community in the promotion of data management as a means to higher quality, more efficient research and analysis, and as a critical component of data science. Tools and platforms to support data management and analysis are rapidly evolving and provide enormous opportunities. They also pose challenges that can be specific to DOE but are common across DOE mission areas and organizations. The DOE Data Day (D3) workshop was held on September 25–26, 2019, and organized by a team at Lawrence Livermore National Laboratory (LLNL) in an effort to gather the data management practitioners at the DOE labs together to share their work and results, facilitating knowledge transfers and best practices across project teams. Over 100 attendees participated from multiple national labs—LLNL, Sandia (SNL), Lawrence Berkeley (LBNL), Los Alamos (LANL), Oak Ridge (ORNL), Argonne (ANL), Pacific Northwest (PNNL), Stanford Linear Accelerator (SLAC)—along with Mission Support and Test Services (MSTS), National Energy Technology Laboratory (NETL), Pantex, National Security Complex (Y-12), National Nuclear Security Administration (NNSA), the DOE Office of Scientific and Technical Information (OSTI), and elsewhere in the DOE complex.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

1.3.3.402 - Cybersecurity Value-at-Risk Framework

The Cybersecurity Value-at-Risk Framework tool will guide users through an assessment and detailed analysis of a hydropower plant's operations. The tool will then provide results and data to inform effective cybersecurity investment decision-making and planning. The results will help managers understand the risk probability of cyberattacks on their facilities and how best to use resources to mitigate those risks.

cybersecurity↗

Optimizing Hydronic Heating for Comfort and Performance in Multifamily Housing

Inefficient control settings in multifamily boilers often lead to substantial energy and cost penalties. To address this, a Fault Detection and Diagnostic (FDD) tool was developed to automate data analysis and identify operational faults such as suboptimal outdoor temperature sensor placement, misconfigured outdoor air reset (OAR) curves, excess boiler cycling, and domestic hot water (DHW) setpoint errors. By comparing pre- and post-implementation periods and applying engineering models, the tool quantifies energy savings and reduces manual analysis time by over 90%. Testing on over 100 monitored sites and a targeted subset of 12 buildings showed an average 11% energy savings from remote optimization; further validation across 19 OAR curve changes confirmed the tool’s accuracy, predicting actual savings within ±5% for most cases. Simple payback can be under three years for many multifamily buildings, though rising hardware, labor, and fuel costs create uncertainties, and decarbonization goals increasingly shift focus to electrification. The FDD tool remains invaluable for optimizing existing boilers, enhancing future electrification measures, and adapting to new technologies by refining building load estimates. In doing so, it supports both near-term efficiency and long-term transitions to low-carbon alternatives, ensuring buildings achieve substantial cost and energy benefits throughout their system lifecycles.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗