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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 163 records · Page 9
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

State of the Art of Molecular Visualization in Immersive Virtual Environments

Abstract Visualization plays a crucial role in molecular and structural biology. It has been successfully applied to a variety of tasks, including structural analysis and interactive drug design. While some of the challenges in this area can be overcome with more advanced visualization and interaction techniques, others are challenging primarily due to the limitations of the hardware devices used to interact with the visualized content. Consequently, visualization researchers are increasingly trying to take advantage of new technologies to facilitate the work of domain scientists. Some typical problems associated with classic 2D interfaces, such as regular desktop computers, are a lack of natural spatial understanding and interaction, and a limited field of view. These problems could be solved by immersive virtual environments and corresponding hardware, such as virtual reality head‐mounted displays. Thus, researchers are investigating the potential of immersive virtual environments in the field of molecular visualization. There is already a body of work ranging from educational approaches to protein visualization to applications for collaborative drug design. This review focuses on molecular visualization in immersive virtual environments as a whole, aiming to cover this area comprehensively. We divide the existing papers into different groups based on their application areas, and types of tasks performed. Furthermore, we also include a list of available software tools. We conclude the report with a discussion of potential future research on molecular visualization in immersive environments.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2022

TEMWizard pyCHIP.gui

TEMWizard pyCHIP.gui is used to visualize intermediate and final results from Atomap, an open-source software tool for determining the position and other features of atomic columns in transmission electron microscopy images. Also known as pyCHIP.gui.

Spurgeon, Steven R.↗
DOE OSTI2020

AniMACCS User Guide

AniMACCS is a utility code in the MELCOR Accident Consequence Code System (MACCS) software suite that allows for certain MACCS output information to be visually displayed and overlaid onto a geospatial map background. AniMACCS was developed by Sandia National Laboratories for the U.S. Nuclear Regulatory Commission. MACCS is designed to calculate health and economic consequences following a release of radioactive material in the atmosphere. MACCS accomplishes this by modeling the atmospheric dispersion, deposition, and consequences of the release, which depend on several factors including the source term, weather, population, economic, and land-use characteristics of the impacted geographical area. From these inputs, MACCS determines the characteristics of the plume, as well as ground and air concentrations as a function of time and radionuclide.

63 RADIATION, THERMAL, AND OTHER ENVIRON. POLLUTAN↗
DOE OSTI2024

An Accelerated Clip Algorithm for Unstructured Meshes: A Batch-Driven Approach

The clip technique is a popular method for visualizing complex structures and phenomena within 3D unstructured meshes. Meshes can be clipped by specifying a scalar isovalue to produce an output unstructured mesh with its external surface as the isovalue. Similar to isocontouring, the clipping process relies on scalar data associated with the mesh points, including scalar data generated by implicit functions such as planes, boxes, and spheres, which facilitates the visualization of results interior to the grid. In this paper, we introduce a novel batch-driven parallel algorithm based on a sequential clip algorithm designed for high-quality results in partial volume extraction. Our algorithm comprises five passes, each progressively processing data to generate the resulting clipped unstructured mesh. The novelty lies in the use of fixed-size batches of points and cells, which enable rapid workload trimming and parallel processing, leading to a significantly improved memory footprint and run-time performance compared to the original version. On a 32-core CPU, the proposed batch-driven parallel algorithm demonstrates a run-time speed-up of up to 32.6x and a memory footprint reduction of up to 4.37x compared to the existing sequential algorithm. The software is currently available under an open-source license in the VTK visualization system.

Tsalikis, Spiros↗
DOE OSTI2022

AIMSim : An accessible cheminformatics platform for similarity operations on chemicals datasets

The recent advances in deep learning, generative modeling, and statistical learning have ushered in a renewed interest in traditional cheminformatics tools and methods. Quantifying molecular similarity is essential in molecular generative modeling, exploratory molecular synthesis campaigns, and drug-discovery applications to assess how new molecules differ from existing ones. Further, most tools target advanced users and lack general implementations accessible to the larger community. In this work, we introduce Artificial Intelligence Molecular Similarity (AIMSim), an accessible cheminformatics platform for performing similarity operations on collections of molecules called molecular datasets. AIMSim provides a unified platform to perform similarity-based tasks on molecular datasets, such as diversity quantification, outlier and novelty analysis, clustering, dimensionality reduction, and inter-molecular comparisons. AIMSim implements all major binary similarity metrics and molecular fingerprints and is provided as a Python package that includes support for command-line use as well as a Graphical User Interface for code-free utilization with fully interactive plots.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

epicsuite(EAS)

Software, Documentation, Tutorials, Testing data, Example data for processing, analysis, filtering, querying, visualization and otherwise transforming genomic data for scientific analysis and discovery.

Rogers, David H.↗
DOE OSTI2020

SCALE Newsletter (Number 52, Spring 2020)

SCALE Newsletter is published by the Reactor and Nuclear Systems Division of the Oak Ridge National Laboratory. This issue, number 52 from Spring of 2020, holds information about the current state, planned updates, and previews of the SCALE system designed and maintained by ORNL staff. This issue contains employee spotlights for Dr. Kursat Bekar as well as Dr. Andrew M. Holcomb and displays data and charts from new/updated features of SCALE such as new data libraries, Fulcrum 3D visualizations, and interactions with ENDF/B-VIII.0 data.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

REDESIGNING A PERFORMANCE MONITORING SOFTWARE FOR SUPERCOMPUTERS

The objective of this project was to improve upon the existing Watchr software that charts performance test metrics from the Trilinos project run on supercomputers at Sandia and elsewhere across the DOE complex. Software was iteratively designed and developed using Python Pandas and Dash data visualization to improve the extensibility and user experience of Watchr. Documentation is being maintained for future developers who want to extend the application.

Camacho, Dane Joseph [Sandia National Laboratories↗
DOE OSTI2025

SPRUCE Root Production Assessed with Manual Minirhizotrons Resolved to Plant Functional Type, 2015-2021

This dataset contains raw root length and diameter for individual roots and estimated root population production measurements from the Spruce and Peatland Responses Under Changing Environments (SPRUCE) experimental site within the Marcell Experimental Forest in northern Minnesota, USA. Measurements started at the beginning of whole ecosystem warming manipulations in 2015 through 2021 (2015-05-26 to 2021-09-01). Root morphology and estimated production were quantified throughout the peat profile with manual minirhizotrons deployed within SPRUCE plots. Images were processed using commercial software to quantify the length and diameter of individual roots. Roots were visually assigned to a plant functional type (PFT) of either (ericaceous) shrub, herb (sedges and Maianthemum trifolium), or tree (Larix laricina, Picea mariana) based on expert opinion. The biomass of individual roots was estimated using PFT-specific allometric equations (Iversen et al., 2018). Production per day was estimated as the length of new roots produced between imaging sessions, divided by the number of days between imaging sessions. These values were placed on a m2 aboveground area basis and scaled to a standard depth of 1m (roots are not evenly distributed with depth, do not interpret value as being on a m3 basis). Maximum and average (weighted by production length) depth of each PFT were also estimated within each minirhizotron tube. Annual production was interpolated as the average of four methods to scale these data (see Weber et al, 2026). Standing crop of roots was estimated for each tube as the maximum visible amount (both length and mass) of roots of that PFT for that year. These data expand the ability of researchers to accurately estimate the belowground dynamics of peatland vegetation, as well as the role that fine roots may play in impacting the fluxes of carbon within peatlands. This dataset contains three data files in comma-separate values (*.csv) format. This dataset contains one data file in comma-separate values (.csv) format. Additional metadata are provided: three data dictionaries and a file-level metadata file in comma-separate values (.csv) format and a user guide in PDF (*.pdf) format.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Modular Subsurface Sensors and Integrated Software for Advanced Subsurface Characterization and Monitoring using Unoccupied Vehicles

The advent and subsequent proliferation of autonomous airborne, waterborne, and groundbased vehicles (i.e., “drones”) promises to broadly transform the geosciences and associated industries, including fossil energy exploration and development, mineral resource exploration and development, water-resource management, and environmental remediation. For geophysical characterization and monitoring, the prospect of programming highly repeatable and low-cost drone missions for subsurface imaging will allow for deployments in hazardous and previously inaccessible areas. Coupled with autonomous workflows for data processing, management, and visualization, drone-based geophysical characterization and monitoring will enable unprecedented, real-time insight into diverse subsurface properties and processes of scientific and engineering importance. Toward this end, the objectives of this Lab Directed Research and Development (LDRD) project were to develop new (1) instrumentation for dronebased electromagnetic induction (EMI) geophysical imaging, including separated transmitter and receivers and associated electronics, (2) software for real-time data telemetry, processing, management, and visualization. Although EMI has been previously deployed using unoccupied aerial systems (UASs), these applications failed to capitalize on the game-changing capabilities of drone platforms. Whereas drone-based data acquisition allows for collection of rich, three-dimensional (3D) multi-offset/multi-angle configurations between transmitters and receivers, past efforts have relied on conventional instrumentation that was designed for ground-based data collection with the transmitter and a single receiver housed in the same unit; nor did these previous applications demonstrate real-time delivery of results to support rapid management decisions in the field. In this 1-year project, we (1) designed and constructed new lightweight independent transmitter and receiver antenna platforms that communicate with a laptop computer; (2) developed software to control data acquisition, manage/transfer data, and visualize data as its collected; and (3) demonstrated the operation of the new hardware and software systems in a ground-based field test. Our work entails major technological advances for EMI and established a foundation on which to build a new drone-based, real-time geophysical EMI imaging capability to support diverse challenges facing the nation.

47 OTHER INSTRUMENTATION↗
DOE OSTI2026

Same Data, Different Audiences: Using Personas to Scope a Supercomputing Job Queue Visualization

Domain-specific visualizations sometimes focus on narrow, albeit important, tasks for one group of users. This focus limits the utility of a visualization to other groups working with the same data. While tasks elicited from other groups can present a design pitfall if not disambiguated, they also present a design opportunity—namely, the development of visualizations that support multiple groups. This development choice presents a trade-off of broadening the scope but limiting support for the more narrow tasks of any one group, which in some cases can enhance the overall utility of the visualization. We investigate this scenario through a design study where we develop Guidepost, a notebook-embedded visualization of data that helps scientists assess compute wait times, machine learning researchers understand prediction accuracy, and system maintainers analyze usage trends. We adapt the use of personas for visualization design from existing literature in the HCI and design domains, applying them to categorize tasks based on their uniqueness across stakeholder personas. Under this model, tasks shared between all groups should be supported by interactive visualizations and tasks unique to each group can be deferred to scripting with notebook-embedded visualization design. We evaluate our visualization through real-world case studies and a task-focused evaluation with nine participants. We observe that together, Guidepost's visual encodings, interactions, and export capabilities support the tasks of our differing personas.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2026

Vision and Development of a Design, Implementation, and Verification Automation (DIVA) Software Platform for DNA Construction

Abstract DNA construction, while a prerequisite to many biological endeavors, is often a time-consuming distraction from an individual’s primary research objectives. We envisioned that with the right software infrastructure and cultural mindset, a single person could execute in parallel the batched DNA construction tasks of an entire research institute, at scales realizing efficiency gains through process and laboratory automation. In pursuit of this vision, we developed the Design, Implementation, and Verification Automation (DIVA) software platform. DIVA’s web interface enables researchers to design DNA constructs (using visual biological computer-aided design tools and biological parts repositories), submit designs for construction to dedicated staff, and track DNA construction as it progresses. DIVA supports the dedicated staff through the DNA construction process and records both successful and unsuccessful attempts toward improving the overall process. The platform is publicly available at public-diva.jbei.org and its open-source code through github.com/JBEI/DIVA.

Plahar, Hector [DOE Agile BioFoundry , , ,; DOE Jo↗
DOE OSTI2024

Methods for Causal Discovery

SAND2025-11742O Methods for Causal Discovery is a software tool that is used for causal discovery from data, including predicting and visualizing directed acyclic graphs from data using traditional machine learning techniques. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

SciDAC↗
DOE OSTI2020

MSTAR2019 Code Description and User's Manual

This report describes an ideal cascade model of uranium enrichment that includes side feed and side product streams and flexible input options. It is based on the original MSTAR model developed by Ed Von Halle and implemented in a Visual Basic code. The current version allows the user to specify integer numbers of stages or the stage numbers of external flows instead of assays in those flows. The computational engine is written in FORTRAN-90 and is invoked by a user-friendly GUI written in C++. This version of MSTAR has been demonstrated to operate on Linux, Mac, and Windows platforms, and has undergone significant testing and quality analysis. A number of examples are presented to illustrate the operation of the code and guide the user. The code is extremely fast, and results are returned immediately. The input and output have been specially configured for analysis by the environmental sampling team of the International Atomic Energy Agency (IAEA). A number of additional output features are included to assist the user in visualizing computational results and downloading data to files for use in other analysis software.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2022

VERAView User's Manual

VERAView has been developed as an interactive graphical interface for the visualization and engineering analyses of output data from VERA. The Python-based software is easy to install, intuitive to use, and provides instantaneous 2D and 3D images, 1D plots, and alpha-numeric data from VERA multi-physics simulations. This document provides a brief overview of the software and some description of the major features of the application, including examples of each of the encapsulated “widgets” that have been implemented thus far. VERAView is still under major development and large changes in the software and this document are still anticipated.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

GPR Robotic Assisted Non-Destructive Evaluation of Concrete Structures - 20196

Reinforced concrete structures are always under exposure of internal or external deteriorations due to many factors such as environmental, nuclear radiation or even construction deficiencies. The use of nondestructive test is one of the reliable methods to inspect structural members. In this case, GPR has a good capability to detect inside deteriorations of concrete structures. However, in many cases it is hard to inspect structural members by hand due to safety issues or inaccessibility. Thus, an alternative way to reduce such risks is to employ robot to carry nondestructive equipment. In this research, twelve reinforced concrete RC beams (8 x 16 x 96, width, height and length) are cast in the lab. Three RC beams have no defect and nine others various defects such as corrosion, de-bonded bars, void, delamination and honeycombing. The one-point load is applied at the center of the RC beam. The loading level is carried out at three levels: 50%, 75% and 100% of maximum load and total load-displacement diagram are performed. The load is held at each level and the robotic GPR is used to scan the side of RC beams. Then, RADAN software is employed to find out any defects at different loading conditions and visualize the crack propagation. The RADAN results show that the pattern of crack propagation for corrosion and debonding are same. Also, the load-displacement results present that inside defect cause reduction of load-capacity of RC beam. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2020

System and method of managing large data files

Disclosed are systems and software that provide a high-performance, extensible file format and web API for remote data access and a visual interface for data viewing, query, and analysis. The described system can support storage of raw spectroscopic data such as neural recording data, MSI data, metadata, and derived analyses in a single, self-describing format that may be compatible by a large range of analysis software.

Bowen, Benjamin P.↗
DOE OSTI2026

Dataset describing two reference models for full-spectral lighting and daylight simulations together with implementations for two software systems

A dataset of two spectral lighting simulation reference models - one office and one factory hall - is presented. It aims to demonstrate and support full-spectral daylight and electric lighting simulations and facilitate evaluation of non-visual effects of light. The dataset includes Rhino CAD geometry, comprehensive spectral material and light source data and window system BSDF data. Example implementations in the two software tools, Radiance and OWL, enable reproducible workflows and support adoption in other software. The dataset is openly available on Zenodo. The office model reproduces Room 518 at the University of Innsbruck, including a west-facing façade and interior furnishings. The factory hall model follows the proposed geometry in the European standard 15193 for building energy performance. Interior reflectances in the office were measured in-situ using a handheld spectrometer. Exterior spectra and factory hall materials matching specified reflectances were obtained from an online spectral materials database. Glazing transmittance was derived from IGDB data using LBNL Optics/WINDOW. BSDFs for venetian blinds at various tilt angles, and for a diffusing pane adapted from the Complex Glazing Database, were generated in WINDOW. Luminaires in both models are specified with photometric files (Eulumdat/IES) and lamp spectra (Fluorescent 840, 4000 K LED). The provided example implementations (Radiance, OWL) include prepared input data and scripts to run first spectral simulations; example results are also included. The dataset is prepared to support reuse by researchers, designers and software developers for method validation, software engineering and comparison, and development of spectral metrics and controls.

Geisler-Moroder, David↗