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Results for “map sharpening”

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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17 records
All sourcesNASA NTRSDOE OSTI
DOE OSTI2018

Automated map sharpening by maximization of detail and connectivity

An algorithm for automatic map sharpening is presented that is based on optimization of the detail and connectivity of the sharpened map. The detail in the map is reflected in the surface area of an iso-contour surface that contains a fixed fraction of the volume of the map, where a map with high level of detail has a high surface area. The connectivity of the sharpened map is reflected in the number of connected regions defined by the same iso-contour surfaces, where a map with high connectivity has a small number of connected regions. By combining these two measures in a metric termed the `adjusted surface area', map quality can be evaluated in an automated fashion. This metric was used to choose optimal map-sharpening parameters without reference to a model or other interpretations of the map. Map sharpening by optimization of the adjusted surface area can be carried out for a map as a whole or it can be carried out locally, yielding a locally sharpened map. To evaluate the performance of various approaches, a simple metric based on map–model correlation that can reproduce visual choices of optimally sharpened maps was used. The map–model correlation is calculated using a model with B factors (atomic displacement factors; ADPs) set to zero. This model-based metric was used to evaluate map sharpening and to evaluate map-sharpening approaches, and it was found that optimization of the adjusted surface area can be an effective tool for map sharpening.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

CryoTEN: efficiently enhancing cryo-EM density maps using transformers

Abstract Motivation Cryogenic electron microscopy (cryo-EM) is a core experimental technique used to determine the structure of macromolecules such as proteins. However, the effectiveness of cryo-EM is often hindered by the noise and missing density values in cryo-EM density maps caused by experimental conditions such as low contrast and conformational heterogeneity. Although various global and local map-sharpening techniques are widely employed to improve cryo-EM density maps, it is still challenging to efficiently improve their quality for building better protein structures from them. Results In this study, we introduce CryoTEN—a 3D UNETR++ style transformer to improve cryo-EM maps effectively. CryoTEN is trained using a diverse set of 1295 cryo-EM maps as inputs and their corresponding simulated maps generated from known protein structures as targets. An independent test set containing 150 maps is used to evaluate CryoTEN, and the results demonstrate that it can robustly enhance the quality of cryo-EM density maps. In addition, automatic de novo protein structure modeling shows that protein structures built from the density maps processed by CryoTEN have substantially better quality than those built from the original maps. Compared to the existing state-of-the-art deep learning methods for enhancing cryo-EM density maps, CryoTEN ranks second in improving the quality of density maps, while running >10 times faster and requiring much less GPU memory than them. Availability and implementation The source code and data are freely available at https://github.com/jianlin-cheng/cryoten.

Biochemistry & Molecular Biology↗
DOE OSTI2018

Tools for model-building with cryo-EM maps

There are new tools available to you in Phenix for interpreting cryo-EM maps. You can automatically sharpen (or blur) a map with phenix.auto_sharpen and you can segment a map with phenix.segment_and_split_map. If you have overlapping partial models for a map, you can merge them with phenix.combine_models. If you have a protein-RNA complex and protein chains have been accidentally built in the RNA region, you can try to remove them with phenix.remove_poor_fragments. You can put these together and automatically sharpen, segment and build a map with phenix.map_to_model.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2015

FEM: Feature-enhanced map

A method is presented that modifies a 2 m F obs - D F model σ A -weighted map such that the resulting map can strengthen a weak signal, if present, and can reduce model bias and noise. The method consists of first randomizing the starting map and filling in missing reflections using multiple methods. This is followed by restricting the map to regions with convincing density and the application of sharpening. The final map is then created by combining a series of histogram-equalized intermediate maps. In the test cases shown, the maps produced in this way are found to have increased interpretability and decreased model bias compared with the starting 2 m F obs - D F model σ A -weighted map.

36 MATERIALS SCIENCE↗
DOE OSTI2018

New tools for the analysis and validation of cryo-EM maps and atomic models

Recent advances in the field of electron cryomicroscopy (cryo-EM) have resulted in a rapidly increasing number of atomic models of biomacromolecules that have been solved using this technique and deposited in the Protein Data Bank and the Electron Microscopy Data Bank. Similar to macromolecular crystallography, validation tools for these models and maps are required. While some of these validation tools may be borrowed from crystallography, new methods specifically designed for cryo-EM validation are required. Here, new computational methods and tools implemented in PHENIX are discussed, including d 99 to estimate resolution, phenix.auto_sharpen to improve maps and phenix.mtriage to analyze cryo-EM maps. It is suggested that cryo-EM half-maps and masks should be deposited to facilitate the evaluation and validation of cryo-EM-derived atomic models and maps. The application of these tools to deposited cryo-EM atomic models and maps is also presented.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Geothermal Fault Zone and Fluid Imaging through Joint Airborne ZTEM and Ground MT Data Inversion Analysis

This project has aimed to achieve detailed electrical resistivity resolution at geothermal reservoir scales by combining airborne natural electromagnetic (EM) field surveying (ZTEM) with ground magnetotelluric (MT) measurements to approximate an airborne MT geophysical method. MT alone is relatively expensive and may have permitting challenges in sensitive areas. Airborne ZTEM field data contains only the magnetic field, requires a background assumption, and has been limited to relatively high frequencies, thus suffering uniqueness problems. Based on proto-type 2D simulations, ZTEM ambiguities may be reduced through formal incorporation with possibly sparse ground MT soundings, which we pursued in full 3D for this project. The methodology was tested at the high-temperature Roosevelt Hot Springs geothermal system, Utah, which was considered advantageous given the near total exposure of crystalline reservoir rocks across the project area. ZTEM and ground MT survey data were acquired in 2017, subcontracted to outside parties with which we have worked in the past. These included 80 remote-referenced tensor MT soundings over the Mineral Mountains and adjacent Roosevelt Hot Spring producing geothermal system. These MT stations abut later coverage of a similar number of MT stations taken for the Utah FORGE project providing excellent total data aperture to re-solve structure beneath both project areas better than either set alone. The airborne ZTEM survey covered 704 line kilometers in E-W flight lines with a 250 m line spacing. Although this survey was timed during a maintenance-related shutdown of power production at the Roosevelt Hot Springs, other noise sources difficult to identify but including two high-voltage state-scale transmission lines compromised the ZTEM survey badly leading to unusable responses. Thus, with DOE management concurrence, the project proceeded to emphasize inversion and interpretation of the joint SubTER-FORGE MT data sets with regard to the Roosevelt Hot Springs reservoir recharge and to deep heat sources for both it and the Utah FORGE EGS project area. We also investigated the joint ZTEM-MT sampling concept with data sets from the Eleven Mile Canyon prospect area donated by the U.S. Navy (A. Sabin, PoC). Inversion of the SubTER-FORGE MT data using the HexMT 3D finite element algorithm reveals a large, low-resistivity anomaly extending sub-vertically through the depth range of the crust beneath the western Mineral Mountains. The steep conductive zone connects in the lower crust to a more tabular conductor characteristic of much of the Great Basin that generally is ascribed to current mafic magmatic underplating, hybridization and fluid release. The location of the resolved anomaly relative to the recent (0.5-0.8 Ma) eruptive centers of the Mineral Mountains implicates it as remnants of the magma body which fed these centers. This structure appears to be currently feeding heat and fluids upward into the Roosevelt Hot Springs hydrothermal system, as well as heat laterally to the FORGE project area. Separate and joint inversion models were carried out for the donated Eleven Mile Canyon MT-ZTEM data set to demonstrate concept. ZTEM only inversion showed two main alteration zones in the western portion of the project area known from geological mapping. Joint inversion including an E-W profile of MT soundings sharpened these features considerably. It also resolved in much greater detail the graben related normal faulting structure of the central project area which lies at depths exceeding the sensitivity of ZTEM alone. The sparse number of MT da-ta relative to the ZTEM required upweighting the former by a factor of several, but an exact procedure awaits future research. Our final impression is that sparse MT data can improve resolution of the subsurface over that of ZTEM alone. However, well sampled MT data are to be preferred and offer the simplicity of interpreting just one data type, and possess the superior resolution capability coming with the electric field everywhere, and from their high bandwidth.

15 GEOTHERMAL ENERGY↗
DOE OSTI2019

Application of pan-sharpening algorithm for correlative multimodal imaging using AFM-IR

The coupling of atomic force microscopy with infrared spectroscopy (AFM-IR) offers the unique capability to characterize the local chemical and physical makeup of a broad variety of materials with nanoscale resolution. However, in order to fully utilize the measurement capability of AFM-IR, a three-dimensional dataset (2D map with a spectroscopic dimension) needs to be acquired, which is prohibitively time-consuming at the same spatial resolution of a regular AFM scan. In this paper, we provide a new approach to process spectral AFM-IR data based on a multicomponent pan-sharpening algorithm. This approach requires only a low spatial resolution spectral and a limited number of high spatial resolution single wavenumber chemical maps to generate a high spatial resolution hyperspectral image, greatly reducing data acquisition time. As a result, we are able to generate high-resolution maps of component distribution, produce chemical maps at any wavenumber available in the spectral range, and perform correlative analysis of the physical and chemical properties of the samples. We highlight our approach via imaging of plant cell walls as a model system and showcase the interplay between mechanical stiffness of the sample and its chemical composition. We believe our pan-sharpening approach can be more generally applied to different material classes to enable deeper understanding of that structure-property relationship at the nanoscale.

36 MATERIALS SCIENCE↗
DOE OSTI2017

High-Dimensional Intrinsic Interpolation Using Gaussian Process Regression and Diffusion Maps

This article considers the challenging task of estimating geologic properties of interest using a suite of proxy measurements. The current work recast this task as a manifold learning problem. In this process, this article introduces a novel regression procedure for intrinsic variables constrained onto a manifold embedded in an ambient space. The procedure is meant to sharpen high-dimensional interpolation by inferring non-linear correlations from the data being interpolated. The proposed approach augments manifold learning procedures with a Gaussian process regression. It first identifies, using diffusion maps, a low-dimensional manifold embedded in an ambient high-dimensional space associated with the data. It relies on the diffusion distance associated with this construction to define a distance function with which the data model is equipped. This distance metric function is then used to compute the correlation structure of a Gaussian process that describes the statistical dependence of quantities of interest in the high-dimensional ambient space. The proposed method is applicable to arbitrarily high-dimensional data sets. Here, it is applied to subsurface characterization using a suite of well log measurements. The predictions obtained in original, principal component, and diffusion space are compared using both qualitative and quantitative metrics. Considerable improvement in the prediction of the geological structural properties is observed with the proposed method.

58 GEOSCIENCES↗
DOE OSTI2024

Improving constraints on inflation with CMB delensing

Abstract The delensing of cosmic microwave background (CMB) maps will be increasingly valuable for extracting as much information as possible from future CMB surveys. Delensing provides many general benefits, including sharpening of the acoustic peaks, more accurate recovery of the damping tail, and reduction of lensing-inducedB-mode power. In this paper we present several applications of delensing focused on testing theories of early-universe inflation with observations of the CMB. We find that delensing the CMB results in improved parameter constraints for reconstructing the spectrum of primordial curvature fluctuations, probing oscillatory features in the primordial curvature spectrum, measuring the spatial curvature of the universe, and constraining several different models of isocurvature perturbations. In some cases we find that delensing can recover almost all of the constraining power contained in unlensed spectra, and it will be a particularly valuable analysis technique to achieve further improvements in constraints for model parameters whose measurements are not expected to improve significantly when utilizing only lensed CMB maps from next-generation CMB surveys. We also quantify the prospects of testing the single-field inflation tensor consistency condition using delensed CMB data; we find it to be out of reach of current and proposed experimental technology and advocate for alternative detection methods.

Astronomy & Astrophysics↗
DOE OSTI2017

Internal delensing of Planck CMB temperature and polarization

We present a first internal delensing of CMB maps, both in temperature and polarization, using the public foreground-cleaned (SMICA) Planck 2015 maps. After forming quadratic estimates of the lensing potential, we use the corresponding displacement field to undo the lensing on the same data. We build differences of the delensed spectra to the original data spectra specifically to look for delensing signatures. After taking into account reconstruction noise biases in the delensed spectra, we find an expected sharpening of the power spectrum acoustic peaks with a delensing efficiency of 29 % (TT) 25 % (TE) and 22 % (EE). The detection significance of the delensing effects is very high in all spectra: 12 σ in EE polarization; 18 σ in TE; and 20 σ in TT. The null hypothesis of no lensing in the maps is rejected at 26 σ. While direct detection of the power in lensing B-modes themselves is not possible at high significance at Planck noise levels, we do detect (at 4.5 σ {under the null hypothesis}) delensing effects in the B-mode map, with 7 % reduction in lensing power. Our results provide a first demonstration of polarization delensing, and generally of internal CMB delensing, and stand in agreement with the baseline ΛCDM Planck 2015 cosmology expectations.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2026

Radiative Defects in Chloride-Activated CdSe Thin Films

Defect recombination limits wide-gap Se-based chalcogenide devices, yet how chloride activation reshapes radiative pathways remains unclear. Here we show that a 40 min CdCl 2 anneal converts evaporated CdSe from porous nanograins into dense micrometer-scale polycrystals and sharpens the optical band edge, reducing the Urbach energy from 85 to 17 meV at 300 K. Combining temperature- and fluence-dependent photoluminescence (PL), time-resolved PL, hyperspectral mapping, and hybrid-DFT, we resolve three emissive channels and identify their mechanisms. The near-edge band is excitonic at low temperature and evolves into free-carrier emission at elevated temperature. A sub-gap band at E g −0.45 eV requires above-gap carriers and thermally quenches with a 0.16 eV activation energy. A broad ∼1.05 eV infrared band is excited by above- and below-gap photons and retains microsecond lifetimes at room temperature; patial mapping links it to edge-rich microstructure. Calculations suggest selenium-vacancy and cadmium-vacancy−chlorine complexes, pointing to routes to suppress defect-related losses in wide-gap chalcogenide devices.

Abudulimu, Abasi [Univ. of Toledo, OH (United Stat↗
DOE OSTI2024

Notes on Real-Beam Ground Mapping with Monopulse Radar

The spatial awareness required of modern flight systems is facilitated by images generated by ground-mapping radar. In the forward and aft directions, synthetic aperture techniques are not viable, leaving us with enhancing real aperture radar data. Enhancing real aperture radar data with monopulse information can be achieved with any of several monopulse beam sharpening techniques. Two such algorithms are discussed.

47 OTHER INSTRUMENTATION↗
DOE OSTI2021

MADLens, a python package for fast and differentiable non-Gaussian lensing simulations

Here, we present MADLens a python package for producing non-Gaussian lensing convergence maps at arbitrary source redshifts with unprecedented precision. MADLens is designed to achieve high accuracy while keeping computational costs as low as possible. A MADLens simulation with only particles produces convergence maps whose power agrees with theoretical lensing power spectra up to within the accuracy limits of HaloFit. This is made possible by a combination of a highly parallelizable particle-mesh algorithm, a sub-evolution scheme in the lensing projection, and a machine-learning inspired sharpening step. Further, MADLens is fully differentiable with respect to the initial conditions of the underlying particle-mesh simulations and a number of cosmological parameters. These properties allow MADLens to be used as a forward model in Bayesian inference algorithms that require optimization or derivative-aided sampling. Another use case for MADLens is the production of large, high resolution simulation sets as they are required for training novel deep-learning-based lensing analysis tools. We make the MADLens package publicly available under a Creative Commons License

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2020

Planck 2018 results - VIII. Gravitational lensing

We present measurements of the cosmic microwave background (CMB) lensing potential using the final Planck 2018 temperature and polarization data. Using polarization maps filtered to account for the noise anisotropy, we increase the significance of the detection of lensing in the polarization maps from 5σ to 9σ. Combined with temperature, lensing is detected at 40σ. We present an extensive set of tests of the robustness of the lensing-potential power spectrum, and construct a minimum-variance estimator likelihood over lensing multipoles 8 ≤ L ≤ 400 (extending the range to lower L compared to 2015), which we use to constrain cosmological parameters. We find good consistency between lensing constraints and the results from the Planck CMB power spectra within the ΛCDM model. Combined with baryon density and other weak priors, the lensing analysis alone constrains σ 8 Ωm 0.25 = 0.589 ± 0.020 (1σ errors). Also combining with baryon acoustic oscillation data, we find tight individual parameter constraints, σ8 = 0.811 ± 0.019, H0 = 67.9-1.3+1.2 km s -1 Mpc -1 , and Ω m = 0.303 -0.018 +0.016 . Combining with Planck CMB power spectrum data, we measure σ 8 to better than 1% precision, finding σ 8 = 0.811 ± 0.006. CMB lensing reconstruction data are complementary to galaxy lensing data at lower redshift, having a different degeneracy direction in σ 8 - Ω m space; we find consistency with the lensing results from the Dark Energy Survey, and give combined lensing-only parameter constraints that are tighter than joint results using galaxy clustering. Using the Planck cosmic infrared background (CIB) maps as an additional tracer of high-redshift matter, we make a combined Planck-only estimate of the lensing potential over 60% of the sky with considerably more small-scale signal. We additionally demonstrate delensing of the Planck power spectra using the joint and individual lensing potential estimates, detecting a maximum removal of 40% of the lensing-induced power in all spectra. The improvement in the sharpening of the acoustic peaks by including both CIB and the quadratic lensing reconstruction is detected at high significance.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Electronic Structure, Spectroscopy and Correlation Effects in Novel Materials

This project was targeted on electronic structure, spectroscopic studies, and correlation effects in a variety of novel materials of great current interest. Spectroscopies resolved highly in momentum, energy or spatial dimensions are playing a key role in unraveling the nature of the ground state and excitation properties in wide classes of novel materials. The seminal insights thus obtained are of critical importance not only for answering some of the fundamental questions facing condensed matter physics and materials science today, but also for understanding and thus helping to design and develop new materials with desirable properties, which will continue to be the key to the survival of mankind and its energy needs as a technological society long into the future. However, spectroscopies do not provide a direct map of electronic states, but act as a very complex ‘filter’ or ‘mapping’ of the underlying spectrum. This connection between the electronic states and measured spectra—called the ‘matrix element effect’—is in general an extremely complex function of the phase space of the experiment (e.g. energy/polarization of photons in photoemission), presenting both a challenge and an opportunity. So motivated, this project pursued techniques for realistic treatment of electronic spectra of a wide variety of materials, which served as a prelude to formulating and implementing methodologies for making direct connection with various spectroscopies such as ARPES, STS/STM, and inelastic light scattering. Specific systems are topological materials, including 2D ultrathin films beyond graphene, novel superconductors, and nanocrystals, among others. Our goal was to exploit the strengths of various spectroscopies to piece together the most complete picture of electronic states in systems of current interest, enabling direct and sharpened confrontations with theoretical models, and also to help advance the reach of various spectroscopies.

36 MATERIALS SCIENCE↗
DOE OSTI2019

Remote sensing and geophysical characterization of a floodplain-hillslope system in the East River watershed, Colorado

This package is part of the Watershed Function SFA Data Collection and contains remote sensing data and geophysical measurements acquired at the Pumphouse hillslope-floodplain site, in the East River, Colorado. The remote sensing dataset includes: a) a WorldView-2 (WV-2) pan-sharpened multi-spectral remote sensing image, and b) LiDAR derived products. The WV-2 image was acquired on September 24th, 2015, and it is composed of eight spectral bands (coastal, blue, green, yellow, red, red edge, NIR1, and NIR2) with a spatial resolution of 0.5 m, covering an area of 750x750 m. The LiDAR products are a digital surface model (DSM), representing the top-of-canopy elevation, and a digital terrain model (DTM), representing the bare-ground elevation, at the spatial resolution of 0.5 m. Such data are extracted from the LiDAR point-cloud dataset acquired over the entire watershed on August 2015 (http://dx.doi.org/10.21952/WTR/1412542). The geophysical dataset is composed of the electrical resistivity tomography (ERT) data acquired along a 158.75 m long transect, spanning the hillslope topographical gradient with 1.25 m electrode spacing. The dataset also includes soil water content measured with a TDR system. The package provides also polygons of different vegetation communities, which were used as reference data for mapping plant community distributions. The spatial polygons are based on plant locations acquired during the field campaign of June-July 2017 using an RTK DGPS system. The reference dataset is composed by 11 vegetation classes, namely, deciduous forest, evergreen forest, riparian shrubland, sagebrush, shrubland, potentilla, frasera, lupine meadow, veratrum, bunchgrass meadow, and forb, as well as four non-vegetation classes, such as water-river, water-lake, man-made, bare area, and shadow. The vegetation classes are determined based on distinct spectral and/or structural signatures of dominant species. The package includes products derived by these datasets, such as: a) a plant height map, computed by subtracting the DTM from the DSM, and b) a plant community distribution map, obtained by using a data-fusion machine-learning-based framework that exploit the WV-2 image and plant height information.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Humming Trains in Seismology: An Opportune Source for Probing the Shallow Crust

Abstract Seismologists are eagerly seeking new and preferably low-cost ways to map and track changes in the complex structure of the top few kilometers of the crust. By understanding it better, they can build on what is known regarding important, practical issues. These include telling us whether imminent earthquakes and volcanic eruptions are generating telltale underground signs of hazard, about mitigation of induced seismicity such as from deep injection of wastewater, how the Earth and its atmosphere couple, and where accessible natural resources are. Passive seismic imaging usually relies on blind correlations within extended recordings of Earth’s ceaseless “hum” or coda of well-mixed, small vibrations. In this article, we propose a complementary approach. It is seismic interferometry using opportune sources—specifically ones not stationary in time and moving in a well-understood configuration. Its interpretation relies on an accurate understanding of how these sources radiate seismic waves, precise timing, careful placement of pairs of listening stations, and seismic phase differentiation (surface and body waves). Massive freight trains were only recently recognized as such a persistent, powerful cultural (human activity-caused) seismic source. One train passage may generate a tremor with an energy output of a magnitude 1 earthquake and be detectable for up to 100 km from the track. We discuss the source mechanisms of train tremors and review the basic theory on sources. Finally, we present case studies of body- and surface-wave retrieval as an aid to mineral exploration in Canada and to monitoring of a southern California fault zone. We believe noise recovery from this new signal source, together with dense data acquisition technologies such as nodes or distributed acoustic sensing, will deeply transform our ability to monitor activity in the shallow crust at sharpened resolution in time and space.

Geochemistry & Geophysics↗