SEARCH · Search NASA

Results for “global algorithm comparison framework”

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.

SourceResearch connectionFrom yearThrough year

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

33 records · Page 2

All sources NASA NTRS DOE OSTI

DOE OSTI2016

Simulation of orographic effects with a Quasi-3-D Multiscale Modeling Framework: Basic algorithm and preliminary results

Here, the global atmospheric models based on the Multi-scale Modeling Framework (MMF) are able to explicitly resolve subgrid-scale processes by using embedded 2-D Cloud-Resolving Models (CRMs). Up to now, however, those models do not include the orographic effects on the CRM grid scale. This study shows that the effects of CRM grid-scale orography can be simulated reasonably well by the Quasi-3-D MMF (Q3D MMF), which has been developed as a second-generation MMF. In the Q3D framework, the surface topography can be included in the CRM component by using a block representation of the mountains, so that no smoothing of the topographic height is necessary. To demonstrate the performance of such a model, the orographic effects over a steep mountain are simulated in an idealized experimental setup with each of the Q3D MMF and the full 3-D CRM. The latter is used as a benchmark. Comparison of the results shows that the Q3D MMF is able to reproduce the horizontal distribution of orographic precipitation and the flow changes around mountains as simulated by the 3-D CRM, even though the embedded CRMs of the Q3D MMF recognize only some aspects of the complex 3-D topography. It is also shown that the use of 3-D CRMs in the Q3D framework, rather than 2-D CRMs, has positive impacts on the simulation of wind fields but does not substantially change the simulated precipitation.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2021

Computational Framework for Machine-Learning-Enabled 13 C Fluxomics

13 C metabolic flux analysis (MFA) has emerged as a powerful tool for synthetic biology. This optimization-based approach suffers long computation time and unstable solutions depending on the initial guess. Here, we develop a machine-learning-based framework for 13 C fluxomics. Specifically, training and test data sets are generated by metabolic network decomposition and flux sampling, in which flux ratios at metabolic nodes and simulated labeling patterns of metabolites are used as training targets and features, respectively. To improve prediction accuracy and simplify the model, automated processes are developed for flux ratio selection based on solvability and feature screening based on importance. We found that predictive performance can be significantly improved using both amino acids and central carbon metabolites in comparison with amino acids alone. Together with measured external fluxes, the predicted flux ratios determine the mass balance system, yielding global flux distributions. This approach is validated by flux estimation using both simulated and experimental data in comparison with canonical 13 C MFA. The approach represents a reliable fluxomics method readily applicable to high-throughput metabolic phenotyping, which highlights the advances of intelligent learning algorithms in synthetic biology, specifically in the Test and Learn stage of the Design-Build-Test-Learn cycle.

13C metabolic flux analysis↗

NASA NTRSDate not supplied

Biomass Harmonization and SAR Analysis with the Multi-mission Algorithm and Analysis Platform (MAAP)

The Multi‐mission Algorithm and Analysis Platform (MAAP) is a collaborative effort between NASA and the European Space Agency (ESA) to support above ground biomass (AGB) research in an open science framework. MAAP brings together relevant data, algorithms, and computing capabilities in a common cloud environment to address the challenges of sharing and processing data from field, airborne and satellite measurements. MAAP was publicly released in October 2021, providing computing capabilities co-located with the data, a collaborative coding and analysis environment, and a set of interoperable tools and algorithms developed to support the estimation and visualization of data. MAAP has allowed scientists from both North America and Europe to collaborate on the generation and analysis/visualization of data derived from multiple, discipline-adjacent missions in an open, collaborative environment that has reached beyond traditional scientific investigation. MAAP has been used to support multiple scientific activities. To date, existing LiDAR data from multiple platforms has been calibrated with field measurements and combined for more comprehensive and accurate estimates of above ground biomass AGB; these LiDAR platforms include airborne (e.g. LVIS), the International Space Station (NASA’s Global Ecosystem Dynamics Investigation (GEDI), and satellites (e.g. ICESat-2). The current challenge is to effectively and seamlessly combine the aforementioned LiDAR-based data with new data sources such as P-band RADAR from ESA’s upcoming BIOMASS mission, existing ESA Sentinel-1 C-band SAR, and the 30 PB/yr of high cadence global coverage L-band SAR data from the upcoming NASA-ISRO SAR (NISAR) mission. Recent analysis using MAAP merged ICESat-2 and optical data (Harmonized Landsat Sentinel) produced the most comprehensively precise estimate of boreal-wide AGB to date. Another effort using MAAP is the production and open distribution of global comparisons of AGB map estimates, including from ICESat-2 and GEDI, to bolster stakeholder uptake for policy applications. These map estimates will feed into the Intergovernmental Panel on Climate Change (IPCC) database, likely aiding the next Global Carbon Stocktake of the UNFCCC. Furthermore, the biomass retrieval intercomparison exercise BRIX-2 could benefit from the MAAP providing standardized test cases (based on airborne campaign and spaceborne data) allowing the community to develop and apply retrieval algorithms based on these test cases, while forthcoming SAR data training curricula could also use the MAAP as a teaching and learning platform. The MAAP is meeting the challenges inherent in international, open science collaboration and large scale computing with a platform that is entirely open source and cloud native, using open standards for data access, manipulation, protocols, and formats. The MAAP data system consists of a dedicated data store whose data is indexed in an online catalog conforming to established metadata, application programmatic interfaces (APIs), and service interface standards, using an implementation of the open sourced NASA Common Metadata Repository. Federation of user identities allows users from either NASA or ESA to access and consume services from the other using a unified metadata catalog for the data utilized across the ESA and NASA MAAP platforms. Similarly, we are exploring how to increase interoperability to achieve a common approach to packaging, orchestrating and executing algorithms, with interoperable access to data for subsetting, fast browse, and cloud-optimized access, all using interoperable standards such as those from the Open Geospatial Consortium (OGC). Designed for interoperability, ESA and NASA utilize a common architecture for the software platform. It provides a cloud-based algorithm development environment (ADE) that enables scientists to develop algorithms collaboratively with access to the MAAP data catalog as well as other data archives. MAAP provides an Eclipse Che-based ADE supporting both Python and R languages, popular in this biomass community. Algorithms developed and containerized within the ADE can be deployed to run to thousands of computational nodes in the MAAP’s data processing system (DPS), dramatically speeding up processing and giving scientists a rapid, iterative turnaround of results. NASA’s implementation of the DPS is based on the Hybrid Science Data System (HySDS) framework, used by NASA flight projects to produce Earth science standard products.

cloud computing↗

NASA NTRS2022

Constraining Global Coronal Models with Multiple Independent Observables

Global coronal models seek to produce an accurate physical representation of the Sun's atmosphere that can be used, for example, to drive space-weather models. Assessing their accuracy is a complex task, and there are multiple observational pathways to provide constraints and tune model parameters. Here, we combine several such independent constraints, defining a model-agnostic framework for standardized comparison. We require models to predict the distribution of coronal holes at the photosphere, and neutral line topology at the model's outer boundary. We compare these predictions to extreme-ultraviolet (EUV) observations of coronal hole locations, white-light Carrington maps of the streamer belt, and the magnetic sector structure measured in situ by Parker Solar Probe and 1 au spacecraft. We study these metrics for potential field source surface (PFSS) models as a function of source surface height and magnetogram choice, as well as comparing to the more physical Wang–Sheeley–Arge (WSA) and the Magnetohydrodynamic Algorithm outside a Sphere (MAS) models. We find that simultaneous optimization of PFSS models to all three metrics is not currently possible, implying a trade-off between the quality of representation of coronal holes and streamer belt topology. WSA and MAS results show the additional physics that they include address this by flattening the streamer belt while maintaining coronal hole sizes, with MAS also improving coronal hole representation relative to WSA. We conclude that this framework is highly useful for inter- and intra-model comparisons. Integral to the framework is the standardization of observables required of each model, evaluating different model aspects.

S. T. Badman↗

DOE OSTI2024

Alternating Direction Decomposition with Strong Bounding and Convexification (ADDSBC) for Solving Security Constrained AC Unit Commitment Problems

This project aims to develop efficient and robust computational methods for solving the security-constrained unit commitment and alternating current optimal power flow problem (SC-UC-ACOPF). The SC-UC-ACOPF problem is at the center of the short-term operation of the U.S. Power Grid. It is solved every week, every day, and every 10 minutes to plan for the optimal action of electricity generation and consumption by minimizing the generation cost and maintaining power system reliability against potential disruptions of equipment failures. In mathematical terms, SC-UC-ACOPF is a challenging large-scale mixed-integer nonlinear optimization model. This means that the decisions involve both discrete variables, e.g. the turning on and off of generators and switching of transmission lines and transformers, and continuous decisions, e.g. the amount of energy generated by each generator and the power flows in the power grid. The physics of the power flow is described by nonlinear equations involving real and reactive power and bus voltages. Another key feature is the large number of contingencies, i.e. the system needs to stay reliable in face of failure of any one equipment, such as transmission lines and generators. The U.S. power grids are extremely complicated and large scale with more than 5,000 generators, 50,000 buses, and 100,000 high-voltage transmission lines, making the SC-UC-ACOPF a very large-scale computation challenge. The research developed in this project aims to solve the SC-UC-ACOPF problems in the three timescales, i.e. weekly, daily, and every 10-min. The proposed computational methods are built on a principled algorithmic approach of decomposition and penalization. More specifically, the algorithm develops spatial and temporal decomposition by exploiting the strong temporal coupling and weak spatial coupling of the UC problem and the complementary feature, i.e. weak temporal coupling and strong spatial coupling of the ACOPF problem. The algorithm also leverages recent progresses in strong convex relaxation of ACOPF. A unique feature of the proposed approach is that it generates a valid, global upper bound on the optimal maximum profit. In this way, a global optimality gap is available to measure the quality of the solution. To further speed up computation, the research team has developed a plethora of effective heuristics to strengthen the iterative penalty-based decomposition framework. For instance, a heuristic is developed to construct inner approximations of the time coupling constraints within the time decoupled problems. Contingencies are pre-screened and low-rank matrix computation is exploited to find the almost unique solution to each contingency. A novel heuristic for line switching is proposed and tested with positive impacts on instances where line switching is beneficial. Taking a systematic approach and carefully handling every detail of the problem pays off. The TIM-GO’s performance throughout the trials and the final event was stellar. TIM-GO garnered the second highest total prize money and is ranked in the top three positions across all categories of comparison.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2019

Economical and Engineering Aspects of Proactive Demand Participation: Centralized versus Bilateral Control Structure

The electric grid of the U.S. is evolving from a system characterized by large and centralized fossil-fueled power plants and passive customers to a network with high penetration of distributed energy resources and proactive customers. This project facilitated the evolution of the U.S. electric power grid by enabling proactive participation of demands in electricity market at the power distribution system level. This project has three major achievements. First, we designed a centralized distribution system operator managed electricity market and developed a three-phase alternating current optimal power flow algorithm to coordinate the operation of large-scale flexible loads and distributed energy resources. Second, we designed a decentralized bilateral coordinate framework for retail electricity market, where each participating customer is capable of making decisions regarding energy production and consumption based on information received from transactive neighbors. Third, the impacts of centralized and decentralized demand-side participation scheme on power system operations were evaluated with both large-scale simulations and hardware-in-the-loop demonstrations. The major activities and specific accomplishments of the technical tasks are summarized in Section II. The detailed design of centralized/hierarchical and decentralized/bilateral retail electricity markets and the comparison between the two markets are described in Section III. The accomplishments and conclusions of the project are presented in Section IV. The major findings of the project falls into three areas, hierarchical distribution system operator managed electricity market, bilateral electricity market and decentralized market coordination, and comparison of centralized and decentralized market coordination mechanisms. In the area of hierarchical distribution system operator managed electricity market design, an integrated wholesale and retail electricity market was shown to be highly effective in extracting the operational flexibility from distributed energy resources to provide services to the wholesale market. A chordal conversion based convex iteration algorithm is not only computationally efficiency but also achieves global optimal solution in coordinating the operations of a large number of heterogeneous distributed energy resources.In the area of decentralized market coordination approach, we showed that bilateral transactions among proactive customers and decentralized transaction clearing mechanism based on simultaneous second-price sealed-bid auction can encourage truthful bidding strategies from the market participations. In addition, the individual customers can rely on a portfolio optimization approach to maximize their returns while minimizing risks. In the area of comparison of centralized and decentralized market coordination mechanisms, we found that the centralized market design results in higher social welfare and lower wholesale market clearing price for electricity. In general, centralized market design favors distributed energy resources and fixed loads. The decentralized market design mostly benefits flexible loads and conventional generators.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

DOE OSTI2016

Sensitivity of summer ensembles of fledgling superparameterized U.S. mesoscale convective systems to cloud resolving model microphysics and grid configuration

The sensitivities of simulated mesoscale convective systems (MCSs) in the central U.S. to microphysics and grid configuration are evaluated here in a global climate model (GCM) that also permits global-scale feedbacks and variability. Since conventional GCMs do not simulate MCSs, studying their sensitivities in a global framework useful for climate change simulations has not previously been possible. To date, MCS sensitivity experiments have relied on controlled cloud resolving model (CRM) studies with limited domains, which avoid internal variability and neglect feedbacks between local convection and larger-scale dynamics. However, recent work with superparameterized (SP) GCMs has shown that eastward propagating MCS-like events are captured when embedded CRMs replace convective parameterizations. This study uses a SP version of the Community Atmosphere Model version 5 (SP-CAM5) to evaluate MCS sensitivities, applying an objective empirical orthogonal function algorithm to identify MCS-like events, and harmonizing composite storms to account for seasonal and spatial heterogeneity. A five-summer control simulation is used to assess the magnitude of internal and interannual variability relative to 10 sensitivity experiments with varied CRM parameters, including ice fall speed, one-moment and two-moment microphysics, and grid spacing. MCS sensitivities were found to be subtle with respect to internal variability, and indicate that ensembles of over 100 storms may be necessary to detect robust differences in SP-GCMs. Furthermore, these results emphasize that the properties of MCSs can vary widely across individual events, and improving their representation in global simulations with significant internal variability may require comparison to long (multidecadal) time series of observed events rather than single season field campaigns.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS2016

Uncertainty Assessment of the NASA Earth Exchange Global Daily Downscaled Climate Projections (NEX-GDDP) Dataset

The NASA Earth Exchange Global Daily Downscaled Projections (NEX-GDDP) dataset is comprised of downscaled climate projections that are derived from 21 General Circulation Model (GCM) runs conducted under the Coupled Model Intercomparison Project Phase 5 (CMIP5) and across two of the four greenhouse gas emissions scenarios (RCP4.5 and RCP8.5). Each of the climate projections includes daily maximum temperature, minimum temperature, and precipitation for the periods from 1950 through 2100 and the spatial resolution is 0.25 degrees (approximately 25 km x 25 km). The GDDP dataset has received warm welcome from the science community in conducting studies of climate change impacts at local to regional scales, but a comprehensive evaluation of its uncertainties is still missing. In this study, we apply the Perfect Model Experiment framework (Dixon et al. 2016) to quantify the key sources of uncertainties from the observational baseline dataset, the downscaling algorithm, and some intrinsic assumptions (e.g., the stationary assumption) inherent to the statistical downscaling techniques. We developed a set of metrics to evaluate downscaling errors resulted from bias-correction ("quantile-mapping"), spatial disaggregation, as well as the temporal-spatial non-stationarity of climate variability. Our results highlight the spatial disaggregation (or interpolation) errors, which dominate the overall uncertainties of the GDDP dataset, especially over heterogeneous and complex terrains (e.g., mountains and coastal area). In comparison, the temporal errors in the GDDP dataset tend to be more constrained. Our results also indicate that the downscaled daily precipitation also has relatively larger uncertainties than the temperature fields, reflecting the rather stochastic nature of precipitation in space. Therefore, our results provide insights in improving statistical downscaling algorithms and products in the future.

climate projection↗

NASA NTRS2016

Uncertainty Assessment of the NASA Earth Exchange Global Daily Downscaled Climate Projections (NEX-GDDP) Dataset

The NASA Earth Exchange Global Daily Downscaled Projections (NEX-GDDP) dataset is comprised of downscaled climate projections that are derived from 21 General Circulation Model (GCM) runs conducted under the Coupled Model Intercomparison Project Phase 5 (CMIP5) and across two of the four greenhouse gas emissions scenarios (RCP4.5 and RCP8.5). Each of the climate projections includes daily maximum temperature, minimum temperature, and precipitation for the periods from 1950 through 2100 and the spatial resolution is 0.25 degrees (approximately 25 km by 25 km). The GDDP dataset has received warm welcome from the science community in conducting studies of climate change impacts at local to regional scales, but a comprehensive evaluation of its uncertainties is still missing. In this study, we apply the Perfect Model Experiment framework (Dixon et al. 2016) to quantify the key sources of uncertainties from the observational baseline dataset, the downscaling algorithm, and some intrinsic assumptions (e.g., the stationary assumption) inherent to the statistical downscaling techniques. We developed a set of metrics to evaluate downscaling errors resulted from bias-correction ("quantile-mapping"), spatial disaggregation, as well as the temporal-spatial non-stationarity of climate variability. Our results highlight the spatial disaggregation (or interpolation) errors, which dominate the overall uncertainties of the GDDP dataset, especially over heterogeneous and complex terrains (e.g., mountains and coastal area). In comparison, the temporal errors in the GDDP dataset tend to be more constrained. Our results also indicate that the downscaled daily precipitation also has relatively larger uncertainties than the temperature fields, reflecting the rather stochastic nature of precipitation in space. Therefore, our results provide insights in improving statistical downscaling algorithms and products in the future.

general circulation model (GCM)↗

NASA NTRSDate not supplied

Joint ESA-NASA Multi-Mission Algorithm and Analysis Platform (MAAP)

The scientific community is faced with a need for greatly improved data sharing, analysis, visualization and advanced collaboration based firmly on open science principles. Recent and upcoming launches of new satellite missions with more complex and voluminous data, as well as the ever more urgent need to better understand the global carbon budget and related ecological processes, provided the immediate rational for the ESA-NASA Multi-mission Algorithm and Analysis Platform (MAAP). This highly collaborative joint project of ESA and NASA established a framework between ESA and NASA to share data, science algorithms and compute resources in order to foster and accelerate scientific research conducted by ESA and NASA EO data users. Presented to the public in October 2021, the current version of MAAP provides a common cloud-based platform with computing capabilities co-located with the data, a collaborative coding and analysis environment, and a set of interoperable tools and algorithms developed to support the estimation and visualization of global above-ground biomass. Data from the Global Ecosystem Dynamics Investigation (GEDI) mission on the International Space Station and the Ice, Cloud, and Land Elevation Satellite-2 (ICESat-2) have been instrumental in the first products of MAAP including the first comprehensive map of Boreal above-ground Biomass and a current Global Biomass Harmonization Activity, but the platform is also being specifically designed to support the forthcoming ESA Biomass mission and incorporate data from the upcoming NASA-ISRO SAR (NISAR) mission. While these missions and the corresponding research which includes airborne, field, and calibration/validation data collection and analyses, provide a wealth of data and information relating to global biomass estimation, they also present data storing, processing and sharing challenges. The NISAR mission alone will produce about 80TB/day. These large data volumes present a challenge that would otherwise place accessibility limits on the scientific community and impact scientific progress. Other challenges being addressed by MAAP include: 1) Enabling researchers to easily discover, process, visualize and analyze large volumes of data from both agencies; 2) Providing a wide variety of data in the same coordinate reference frame to enable comparison, analysis, data evaluation, and data generation; 3) Providing a version-controlled science algorithm development environment that supports tools, co-located data and processing resources; and 4) Addressing intellectual property and sharing challenges related to collaborative algorithm development and sharing of data and algorithms. MAAP products can be explored on the MAAP Dashboard at https://earthdata.nasa.gov/maap-biomass or the joint platform entrance at scimaap.net. MAAP also can be accessed through individual NASA (https://maap-project.org) and ESA (https://esa-maap.org/) landing pages.

cloud computing↗

NASA NTRS2020

Biomass Estimation from Simulated GEDI, ICESat-2 and NISAR Across Environmental Gradients in Sonoma County, California

Estimates of the magnitude and distribution of aboveground carbon in Earth’s forests remain uncertain, yet knowledge of forest carbon content at a global scale is critical for forest management in support of climate mitigation. In light of this knowledge gap, several upcoming spaceborne missions aim to map forest aboveground biomass, and many new biomass products are expected from these datasets. As these new missions host different technologies, each with relative strengths and weaknesses for biomass retrieval, as well as different spatial resolutions, consistently comparing or combining biomass estimates from these new datasets will be challenging. This paper presents a demonstration of an inter-comparison of biomass estimates from simulations of three NASA missions (GEDI, ICESat-2 and NISAR) over Sonoma county in California, USA. We use a high resolution, locally calibrated airborne lidar map as our reference dataset, and emphasize the importance of considering uncertainties in both reference maps and spaceborne estimates when conducting biomass product validation. GEDI and ICESat-2 were simulated from airborne lidar point clouds, while UAVSAR’s L-band backscatter was used as a proxy for NISAR. To estimate biomass for the lidar missions we used GEDI’s footprint-level biomass algorithms, and also adapted these for application to ICESat-2. For UAVSAR, we developed a locally trained biomass model, calibrated against the ALS reference map. Each mission simulation was evaluated in comparison to the local reference map at its native product resolution (25 m, 100m transect, and 1 ha) yielding RMSEs of 57%, 75%, and 89% for GEDI, NISAR, and ICESat-2 respectively. RMSE values increased for GEDI’s power beam during simulated daytime conditions (64%), coverage beam during nighttime conditions (72%), and coverage beam daytime conditions (87%). We also test the application of GEDI’s biomass modeling framework for estimation of biomass from ICESat-2, and fine that ICESat-2 yields reasonable biomass estimates, particularly in relatively short, open canopies. Results suggest that while all three missions will produce datasets useful for biomass mapping, tall, dense canopies such as those found in Sonoma County present the greatest challenges for all three missions, while steep slopes also prove challenging for single-date SAR based biomass retrieval. Our methods provide guidance for the inter-comparison and validation of spaceborne biomass estimates through the use of airborne lidar reference maps, and could be repeated with on-orbit estimates in any area with high quality field plot and ALS data. These methods allow for regional interpretations and filtering of multi-mission biomass estimates toward improved wall-to-wall biomass maps through data fusion.

GEDI↗

NASA NTRS2019

Characteristics of Total Column CO2 Retrievals from the OCO Missions: Biases, Information Content and Implications for Flux Inversions

The Orbiting Carbon Observatory-2 and Orbiting Carbon Observatory-3, launched in 2015 and 2019, respectively, are intended to collect and deliver high-resolution observations of CO2 with unprecedented space and time coverage. Observations of CO2 from these remote-sensing missions (also known as XCO2, or column-based average, dry air mole fraction of CO2) are then used by the global carbon cycle community to answer a wide range of science questions, from the distribution and quantification of global and regional CO2 source-sink patterns to quantification of anthropogenic sources at urban scales. Even though we have had the OCO-2 mission flying for a few years now, the retrieval algorithms are continuously evolving and improving to deliver XCO2 retrievals with very high precision and high accuracy (or low biases). In this presentation, we will discuss a simple yet effective quantitative framework that has been developed by the OCO-2 flux team to evaluate the information content of these XCO2 retrievals as soon as they are released, i.e., with lower latency than full-scale flux inversions. This framework serves as a precursor to advanced inverse modeling frameworks and is intended to provide an early but accurate assessment of the signal present in the satellite retrievals, the robustness of that signal, and the ability of these retrievals to resolve patterns in CO2 surface fluxes that cannot be resolved by our current network of surface sites. Specific results will tackle a tiered set of questions that are being addressed using this framework: (a) what are the distribution of retrievals in the different modes of operation and how do they vary in space and time? (b) what is the information that is being given to the inverse modeling frameworks from the space-based data, information above and beyond what is provided by the in-situ data? and (c) how do these factors influence our choices for doing flux inversions with the satellite retrievals? While the primary focus of the results will be on application of this technique to mature OCO-2 retrievals, we will show early results for a couple of months of OCO-3 retrievals. For the time-period that the retrievals from the two missions overlap, we will highlight how this framework allows us to effortlessly put the information from OCO-3 and OCO-2 on an equal footing, thus enabling easy comparison between the two pioneering missions.

Chatterjee, Abhishek↗

DOE OSTI2023

Identifying strengths and weaknesses of methods for computational network inference from single-cell RNA-seq data

Single-cell RNA-sequencing (scRNA-seq) offers unparalleled insight into the transcriptional programs of different cellular states by measuring the transcriptome of thousands of individual cells. An emerging problem in the analysis of scRNA-seq is the inference of transcriptional gene regulatory networks and a number of methods with different learning frameworks have been developed to address this problem. Here, we present an expanded benchmarking study of eleven recent network inference methods on seven published scRNA-seq datasets in human, mouse, and yeast considering different types of gold standard networks and evaluation metrics. We evaluate methods based on their computing requirements as well as on their ability to recover the network structure. We find that, while most methods have a modest recovery of experimentally derived interactions based on global metrics such as Area Under the Precision Recall curve, methods are able to capture targets of regulators that are relevant to the system under study. Among the top performing methods that use only expression were SCENIC, PIDC, MERLIN or Correlation. Addition of prior biological knowledge and the estimation of transcription factor activities resulted in the best overall performance with the Inferelator and MERLIN methods that use prior knowledge outperforming methods that use expression alone. We found that imputation for network inference did not improve network inference accuracy and could be detrimental. Comparisons of inferred networks for comparable bulk conditions showed that the networks inferred from scRNA-seq datasets are often better or at par with the networks inferred from bulk datasets. Our analysis should be beneficial in selecting methods for network inference. At the same time, this highlights the need for improved methods and better gold standards for regulatory network inference from scRNAseq datasets.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

Employing MACS/ViBRANT as a Surrogate MARVEL Reactor for Startup Reactivity Tuning and Supervisory Control Processes

Advanced nuclear reactors are a key part of the future of nuclear energy both in the United States and globally. They offer unique benefits for various energy-demanding applications, including use in remote locations, compact size, modular manufacturing, remote monitoring, low and/or variable power rating operation, and reliance on novel technologies to enhance operational safety. To achieve economic feasibility, advanced reactors must significantly reduce their workforces in comparison with the current fleet. Achieving this reduction will occur through reducing staff workloads using technology to achieve autonomous or semi-autonomous operations, demonstrated by comprehensive testing and validation activities. These operations will require both software and hardware platforms during the design and testing phases. While simulations are useful during the design phase, their performance can significantly deviate during actual deployment on hardware. This report presents the outcomes of a collaborative technical initiative between the U.S. Department of Energy (DOE) Microreactor Program (MRP) and Advanced Sensors and Instrumentation (ASI) Program. The collaboration utilized the Microreactor Automated Control System (MACS) hardware platform to bridge the gap between theoretical reactor design and actual startup and control operations. Two key use cases were investigated: facilitating the startup testing period and demonstrating supervisory control. The first use case details the key Microreactor Applications Research Validation and Evaluation (MARVEL) reactor startup physics testing activities conducted using the MACS platform. These activities included drum worth measurements, shutdown margin assessment, temperature feedback analysis, and scram time evaluation, as well as unique testing that would apply to the MARVEL reactor to demonstrate the testing methodologies in a low-risk environment. The MACS platform, serving as a surrogate representation of the MARVEL reactor, proved instrumental in performing these tests. The exercise revealed aspects that led to optimized processes, refined hardware design, and enhanced base software capabilities. By maturing methods and technologies in this manner, the initiative promises to reduce wasted time in the actual on-site reactor deployment effort, thereby saving significant time and resources. The second use case focuses on the development and implementation of supervisory control methods aimed at managing core tilt, which can result from asymmetrical operations or manufacturing imperfections in fuel rods or reactivity control devices. A key objective was to assess and compare the use of artificial intelligence (AI) for supervisory control. The effort aimed to define the role of supervisory control to enhance performance without risking control instability. This effort explored three distinct approaches: rules-based (RB) methods, optimization techniques, and reinforcement learning (RL) algorithms. Each approach was evaluated for its ease of implementation, its usability, and its effectiveness in responding to asymmetries in neutron flux. Comparative analysis of these approaches provided valuable insights into their applicability and effectiveness, offering a robust framework for advanced reactor operations. Together, these two use cases highlight the potential of hardware test beds to help streamline the design, operation, and control of advanced nuclear reactors. This collaborative effort underscores the importance of continued innovation and experimentation in achieving the next generation of safe, reliable, and economically viable nuclear energy solutions.

22 - GENERAL STUDIES OF NUCLEAR REACTORS↗

NASA NTRS2015

Construction of Polarimetric Radar-Based Reference Rain Maps for the Iowa Flood Studies Campaign

The Global Precipitation Measurement (GPM) Mission Iowa Flood Studies (IFloodS) campaign was conducted in central and northeastern Iowa during the months of April-June, 2013. Specific science objectives for IFloodS included quantification of uncertainties in satellite and ground-based estimates of precipitation, 4-D characterization of precipitation physical processes and associated parameters (e.g., size distributions, water contents, types, structure etc.), assessment of the impact of precipitation estimation uncertainty and physical processes on hydrologic predictive skill, and refinement of field observations and data analysis approaches as they pertain to future GPM integrated hydrologic validation and related field studies. In addition to field campaign archival of raw and processed satellite data (including precipitation products), key ground-based platforms such as the NASA NPOL S-band and D3R Ka/Ku-band dual-polarimetric radars, University of Iowa X-band dual-polarimetric radars, a large network of paired rain gauge platforms, and a large network of 2D Video and Parsivel disdrometers were deployed. In something of a canonical approach, the radar (NPOL in particular), gauge and disdrometer observational assets were deployed to create a consistent high-quality distributed (time and space sampling) radar-based ground "reference" rainfall dataset, with known uncertainties, that could be used for assessing the satellite-based precipitation products at a range of space/time scales. Subsequently, the impact of uncertainties in the satellite products could be evaluated relative to the ground-benchmark in coupled weather, land-surface and distributed hydrologic modeling frameworks as related to flood prediction. Relative to establishing the ground-based "benchmark", numerous avenues were pursued in the making and verification of IFloodS "reference" dual-polarimetric radar-based rain maps, and this study documents the process and results as they pertain specifically to efforts using the NPOL radar dataset. The initial portions of the "process" involved dual-polarimetric quality control procedures which employed standard phase and correlation-based approaches to removal of clutter and non-meteorological echo. Calculation of a scale-adaptive KDP was accomplished using the method of Wang and Chandrasekar (2009; J. Atmos. Oceanic Tech.). A dual-polarimetric blockage algorithm based on Lang et al. (2009; J. Atmos. Oceanic Tech.) was then implemented to correct radar reflectivity and differential reflectivity at low elevation angles. Next, hydrometeor identification algorithms were run to identify liquid and ice hydrometeors. After the quality control and data preparation steps were completed several different dual-polarimetric rain estimation algorithms were employed to estimate rainfall rates using rainfall scans collected approximately every two to three minutes throughout the campaign. These algorithms included a polarimetrically-tuned Z-R algorithm that adjusts for drop oscillations (via Bringi et al., 2004, J. Atmos. Oceanic Tech.), and several different hybrid polarimetric variable approaches, including one that made use of parameters tuned to IFloodS 2D Video Disdrometer measurements. Finally, a hybrid scan algorithm was designed to merge the rain rate estimates from multiple low level elevation angle scans (where blockages could not be appropriately corrected) in order to create individual low-level rain maps. Individual rain maps at each time step were subsequently accumulated over multiple time scales for comparison to gauge network data. The comparison results and overall error character depended strongly on rain event type, polarimetric estimator applied, and range from the radar. We will present the outcome of these comparisons and their impact on constructing composited "reference" rainfall maps at select time and space scales.

Radar↗