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At least 595 records · Page 33
All sourcesNASA NTRSDOE OSTI
DOE OSTI2017

PathBot: A Radiology-Pathology Correlation Dashboard

Pathology is considered the “gold standard” of diagnostic medicine. The importance of radiology-pathology correlation is seen in interdepartmental patient conferences such as “tumor boards” and by the tradition of radiology resident immersion in a radiologic-pathology course at the American Institute of Radiologic Pathology. In practice, consistent pathology follow-up can be difficult due to time constraints and cumbersome electronic medical records. We present a radiology-pathology correlation dashboard that presents radiologists with pathology reports matched to their dictations, for both diagnostic imaging and image-guided procedures. In creating our dashboard, we utilized the RadLex ontology and National Center for Biomedical Ontology (NCBO) Annotator to identify anatomic concepts in pathology reports that could subsequently be mapped to relevant radiology reports, providing an automated method to match related radiology and pathology reports. Radiology-pathology matches are presented to the radiologist on a web-based dashboard. We found that our algorithm was highly specific in detecting matches. Our sensitivity was slightly lower than expected and could be attributed to missing anatomy concepts in the RadLex ontology, as well as limitations in our parent term hierarchical mapping and synonym recognition algorithms. By automating radiology-pathology correlation and presenting matches in a user-friendly dashboard format, we hope to encourage pathology follow-up in clinical radiology practice for purposes of self-education and to augment peer review. We also hope to provide a tool to facilitate the production of quality teaching files, lectures, and publications. Diagnostic images have a richer educational value when they are backed up by the gold standard of pathology.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2021

radkit v1.2

The radkit software suite (python) consists of three primary libraries: stark, trajan, and curie. The trajan library provides the tools to analyze and manipulate data from lidar and inertial measurement unit (IMU) devices as well as trajectories from algorithms such as simultaneous localization and mapping (SLAM). These components allow reading and writing standard data formats, performing rigid affine transformations, discretizing three-dimensional space, and visualizing data products. The curie library comprises a standard set of object-oriented tools for radiation data and analysis in the following modules: (1) listmode and binmode data classes with methods for manipulation, plotting, slicing and file IO; (2) radiological/nuclear source detection/identification analysis results; (3) source encounters of correlated analyses and (4) energy-dependent angular detector response functions. The stark package provides low-level tools that are leveraged by both curie and trajan. The tools are flexible for offline analysis as well as performant for real-time integrations. The radkit libraries have associated Robot Operating System packages for use in real-time and robotic systems.

Joshi, Tenzing↗
DOE OSTI2026

radkit base v1.6

The radkit (base) software suite (python) consists of three primary libraries: stark, trajan, and curie. The trajan library provides the tools to analyze and manipulate data from lidar and inertial measurement unit (IMU) devices, cameras, as well as trajectories from algorithms such as simultaneous localization and mapping (SLAM). These components allow reading and writing standard data formats, performing rigid affine transformations, discretizing three-dimensional space, and visualizing data products. The curie library comprises a standard set of object-oriented tools for radiation data and analysis in the following modules: (1) listmode and binmode data classes with methods for manipulation, plotting, slicing and file IO; (2) radiological/nuclear source detection/identification analysis results; (3) source encounters of correlated analyses and (4) energy-dependent angular detector response functions. The stark package provides low-level tools that are leveraged by both curie and trajan. The tools are flexible for offline analysis as well as performant for real-time integrations.

Salathe, Marco [Lawrence Berkeley National Laborat↗
DOE OSTI2013

New River Geothermal Exploration (Ram Power Inc.)

The New River Geothermal Exploration (DOE Award No. EE0002843) is located approximately 25km south of the Salton Sea, near town of Brawley in Imperial County and approximately 150km east of San Diego, California. A total of 182 MT Logger sites were completed covering the two separate Mesquite and New River grids. The data was collected over a frequency range of 320Hz to 0.001Hz with variable site spacing. A number of different inversion algorithms in 1D, 2D and 3D were used to produce resistivity-depth profiles and maps of subsurface resistivity variations over the survey area. For 2D inversions, a total of eighteen lines were constructed in east-west and north-south orientations crossing the entire survey area. For MT 3D inversion, the New River property was divided in two sub-grids, Mesquite and New River areas. The report comprises of two parts. For the first part, inversions and geophysical interpretation results are presented with some recommendations of the potential targets for future follow up on the property. The second part of the report describes logistics of the survey, survey parameters, methodology and the survey results (data) in digital documents. The report reviews a Spartan MT survey carried out by Quantec Geoscience Limited over the New River Project in California, USA on behalf of Ram Power Inc. Data was acquired over a period of 29 days from 2010/06/26 to 2010/07/24.

15 GEOTHERMAL ENERGY↗
NASA NTRS2011

Leveraging the Cloud for Robust and Efficient Lunar Image Processing

The Lunar Mapping and Modeling Project (LMMP) is tasked to aggregate lunar data, from the Apollo era to the latest instruments on the LRO spacecraft, into a central repository accessible by scientists and the general public. A critical function of this task is to provide users with the best solution for browsing the vast amounts of imagery available. The image files LMMP manages range from a few gigabytes to hundreds of gigabytes in size with new data arriving every day. Despite this ever-increasing amount of data, LMMP must make the data readily available in a timely manner for users to view and analyze. This is accomplished by tiling large images into smaller images using Hadoop, a distributed computing software platform implementation of the MapReduce framework, running on a small cluster of machines locally. Additionally, the software is implemented to use Amazon's Elastic Compute Cloud (EC2) facility. We also developed a hybrid solution to serve images to users by leveraging cloud storage using Amazon's Simple Storage Service (S3) for public data while keeping private information on our own data servers. By using Cloud Computing, we improve upon our local solution by reducing the need to manage our own hardware and computing infrastructure, thereby reducing costs. Further, by using a hybrid of local and cloud storage, we are able to provide data to our users more efficiently and securely. 12 This paper examines the use of a distributed approach with Hadoop to tile images, an approach that provides significant improvements in image processing time, from hours to minutes. This paper describes the constraints imposed on the solution and the resulting techniques developed for the hybrid solution of a customized Hadoop infrastructure over local and cloud resources in managing this ever-growing data set. It examines the performance trade-offs of using the more plentiful resources of the cloud, such as those provided by S3, against the bandwidth limitations such use encounters with remote resources. As part of this discussion this paper will outline some of the technologies employed, the reasons for their selection, the resulting performance metrics and the direction the project is headed based upon the demonstrated capabilities thus far.

Cloud Computing↗
NASA NTRS2024

PACE Technical Report Series, Volume 12: The PACE Level 1C data format

NASA's Plankton, Aerosol, Cloud, ocean Ecosystem (PACE) mission will make global ocean color and atmospheric measurements to provide extended data records of ocean ecology and global biogeochemistry, along with polarimetric measurements for advanced observations of aerosols, clouds and the ocean. PACE will contain three instruments: the primary Ocean Color Instrument (OCI), and two multi-angle polarimeters (MAPs). The latter instruments are contributed under a ‘Do-No-Harm’ (to the rest of the PACE mission) principle, and the PACE Science Data Processing System (SDPS) is only required to produce Level-1b (geolocated radiances with calibration applied) data without performance requirements. However, there is a strong desire to produce data in a format that merges the disparate spatial resolutions, viewing geometry and sampling nature of the three instruments. Our terminology for this format is Level 1c (L1C). This format will be an input to Level 2 algorithms produced from standalone MAP instrument observations, or from algorithms employing multi-sensor fusion. Creating the L1C format has several components. This includes choice of projection method, the means by which multi-angle views are properly incorporated into that projection (‘aggregation’) the means to represent wavelength and light polarization state, the selection of data to be included within the L1C file, and the handling of ancillary data either required for L1C file generation or needed in that format for L2 processing.

PACE↗
DOE OSTI2014

Texture analysis on the fluence map to evaluate the degree of modulation for volumetric modulated arc therapy

Purpose: Texture analysis on fluence maps was performed to evaluate the degree of modulation for volumetric modulated arc therapy (VMAT) plans. Methods: A total of six textural features including angular second moment, inverse difference moment, contrast, variance, correlation, and entropy were calculated for fluence maps generated from 20 prostate and 20 head and neck VMAT plans. For each of the textural features, particular displacement distances (d) of 1, 5, and 10 were adopted. To investigate the deliverability of each VMAT plan, gamma passing rates of pretreatment quality assurance, and differences in modulating parameters such as multileaf collimator (MLC) positions, gantry angles, and monitor units at each control point between VMAT plans and dynamic log files registered by the Linac control system during delivery were acquired. Furthermore, differences between the original VMAT plan and the plan reconstructed from the dynamic log files were also investigated. To test the performance of the textural features as indicators for the modulation degree of VMAT plans, Spearman’s rank correlation coefficients (r{sub s}) with the plan deliverability were calculated. For comparison purposes, conventional modulation indices for VMAT including the modulation complexity score for VMAT, leaf travel modulation complexity score, and modulation index supporting station parameter optimized radiation therapy (MI{sub SPORT}) were calculated, and their correlations were analyzed in the same way. Results: There was no particular textural feature which always showed superior correlations with every type of plan deliverability. Considering the results comprehensively, contrast (d = 1) and variance (d = 1) generally showed considerable correlations with every type of plan deliverability. These textural features always showed higher correlations to the plan deliverability than did the conventional modulation indices, except in the case of modulating parameter differences. The r{sub s} values of contrast to the global gamma passing rates with criteria of 2%/2 mm, 2%/1 mm, and 1%/2 mm were 0.536, 0.473, and 0.718, respectively. The respective values for variance were 0.551, 0.481, and 0.688. In the case of local gamma passing rates, the r{sub s} values of contrast were 0.547, 0.578, and 0.620, respectively, and those of variance were 0.519, 0.527, and 0.569. All of the r{sub s} values in those cases were statistically significant (p < 0.003). In the cases of global and local gamma passing rates, MI{sub SPORT} showed the highest correlations among the conventional modulation indices. For global passing rates, r{sub s} values of MI{sub SPORT} were −0.420, −0.330, and −0.632, respectively, and those for local passing rates were −0.455, −0.490 and −0.502. The values of r{sub s} of contrast, variance, and MI{sub SPORT} with the MLC errors were −0.863, −0.828, and 0.795, respectively, all with statistical significances (p < 0.001). The correlations with statistical significances between variance and dose-volumetric differences were observed more frequently than the others. Conclusions: The contrast (d = 1) and variance (d = 1) calculated from fluence maps of VMAT plans showed considerable correlations with the plan deliverability, indicating their potential use as indicators for assessing the degree of modulation of VMAT plans. Both contrast and variance consistently showed better performance than the conventional modulation indices for VMAT.

60 APPLIED LIFE SCIENCES↗
NASA NTRS1972

Map the distribution of glaciofluvial deposits and associated glacial landforms

The author has identified the following significant results. Relatively little good usable ERTS-1 imagery has been received to date for data extraction. Of three U-2 aircraft support missions flown in Maine, only photography from the 20 September flight is cloud free and of excellent quality. Controlled local contract photography flown in August and September is of generally excellent quality. Low altitude ground truth photography is useful. The system of image and photo filing is discussed, and the limited work involving image and photo comparison is described.

Woodman, R. G.↗
NASA NTRS1998

Clementine High Resolution Camera Mosaicking Project

This report constitutes the final report for NASA Contract NASW-5054. This project processed Clementine I high resolution images of the Moon, mosaicked these images together, and created a 22-disk set of compact disk read-only memory (CD-ROM) volumes. The mosaics were produced through semi-automated registration and calibration of the high resolution (HiRes) camera's data against the geometrically and photometrically controlled Ultraviolet/Visible (UV/Vis) Basemap Mosaic produced by the US Geological Survey (USGS). The HiRes mosaics were compiled from non-uniformity corrected, 750 nanometer ("D") filter high resolution nadir-looking observations. The images were spatially warped using the sinusoidal equal-area projection at a scale of 20 m/pixel for sub-polar mosaics (below 80 deg. latitude) and using the stereographic projection at a scale of 30 m/pixel for polar mosaics. Only images with emission angles less than approximately 50 were used. Images from non-mapping cross-track slews, which tended to have large SPICE errors, were generally omitted. The locations of the resulting image population were found to be offset from the UV/Vis basemap by up to 13 km (0.4 deg.). Geometric control was taken from the 100 m/pixel global and 150 m/pixel polar USGS Clementine Basemap Mosaics compiled from the 750 nm Ultraviolet/Visible Clementine imaging system. Radiometric calibration was achieved by removing the image nonuniformity dominated by the HiRes system's light intensifier. Also provided are offset and scale factors, achieved by a fit of the HiRes data to the corresponding photometrically calibrated UV/Vis basemap, that approximately transform the 8-bit HiRes data to photometric units. The sub-polar mosaics are divided into tiles that cover approximately 1.75 deg. of latitude and span the longitude range of the mosaicked frames. Images from a given orbit are map projected using the orbit's nominal central latitude. Polar mosaics are tiled into squares 2250 pixels on a side, which spans approximately 2.2 deg. Two mosaics are provided for each pole: one corresponding to data acquired while periapsis was in the south, the other while periapsis was in the north. The CD-ROMs also contain ancillary data files that support the HiRes mosaic. These files include browse images with UV/Vis context stored in a Joint Photographic Experts Group (JPEG) format, index files ('imgindx.tab' and 'srcindx.tab') that tabulate the contents of the CD, and documentation files.

Source record↗
NASA NTRS2000

BOREAS Level-1B MAS Imagery At-sensor Radiance, Relative X and Y Coordinates

For BOReal Ecosystem-Atmosphere Study (BOREAS), the MODIS Airborne Simulator (MAS) images, along with the other remotely sensed data, were collected to provide spatially extensive information over the primary study areas. This information includes detailed land cover and biophysical parameter maps such as fraction of Photosynthetically Active Radiation (fPAR) and Leaf Area Index (LAI). Collection of the MAS images occurred over the study areas during the 1994 field campaigns. The level-1b MAS data cover the dates of 21-Jul-1994, 24-Jul-1994, 04-Aug-1994, and 08-Aug-1994. The data are not geographically/geometrically corrected; however, files of relative X and Y coordinates for each image pixel were derived by using the C-130 INS data in a MAS scan model. The data are provided in binary image format files.

Strub, Richard↗
NASA NTRS2010

AutoGen Version 5.0

Version 5.0 of the AutoGen software has been released. Previous versions, variously denoted Autogen and autogen, were reported in two articles: Automated Sequence Generation Process and Software (NPO-30746), Software Tech Briefs (Special Supplement to NASA Tech Briefs), September 2007, page 30, and Autogen Version 2.0 (NPO- 41501), NASA Tech Briefs, Vol. 31, No. 10 (October 2007), page 58. To recapitulate: AutoGen (now signifying automatic sequence generation ) automates the generation of sequences of commands in a standard format for uplink to spacecraft. AutoGen requires fewer workers than are needed for older manual sequence-generation processes, and greatly reduces sequence-generation times. The sequences are embodied in spacecraft activity sequence files (SASFs). AutoGen automates generation of SASFs by use of another previously reported program called APGEN. AutoGen encodes knowledge of different mission phases and of how the resultant commands must differ among the phases. AutoGen also provides means for customizing sequences through use of configuration files. The approach followed in developing AutoGen has involved encoding the behaviors of a system into a model and encoding algorithms for context-sensitive customizations of the modeled behaviors. This version of AutoGen addressed the MRO (Mars Reconnaissance Orbiter) primary science phase (PSP) mission phase. On previous Mars missions this phase has more commonly been referred to as mapping phase. This version addressed the unique aspects of sequencing orbital operations and specifically the mission specific adaptation of orbital operations for MRO. This version also includes capabilities for MRO s role in Mars relay support for UHF relay communications with the MER rovers and the Phoenix lander.

Gladden, Roy E.↗
NASA NTRS1997

Biweekly Maps of Wind Stress for the North Pacific from the ERS-1 Scatterometer

The European Remote-sensing Satellite (ERS-1) was launched in July 1991 and contained several instruments for observing the Earth's ocean including a wind scatterometer. The scatterometer measurements were processed by the European Space Agency (ESA) and the Jet Propulsion Laboratory (JPL). JPL reprocessed (Freilich and Dunbar, 1992) the ERS-1 backscatter measurements to produced a 'value added' data set that contained the ESA wind vector as well as a set of up to four ambiguities. These ambiguities were further processed using a maximum-likelihood estimation (MLE) and a median filter to produce a 'selected vector.' This report describes a technique developed to produce time-averaged wind field estimates with their expected errors using only scatterometer wind vectors. The processing described in this report involved extracting regions of interest from the data tapes, checking the quality and creating the wind field estimate. This analysis also includes the derivation of biweekly average wind vectors over the North Pacific Ocean at a resolution of 0.50 x 0.50. This was done with an optimal average algorithm temporally and an over-determined biharmonic spline spatially. There have been other attempts at creating gridded wind files from ERS-1 winds, e.g., kriging techniques (Bentamy et al., 1996) and successive corrections schemes (Tang and Liu, 1996). There are several inherent problems with the ERS-1 scatterometer. Since this is a multidisciplinary mission, the satellite is flown in different orbits optimized for each phase of the mission. The scatterometer also shares several sub-systems with the Synthetic Aperture Radar (SAR) and cannot be operated while the SAR is in operation. The scatterometer is also a single-sided instrument and only measures backscatter along the right side of the satellite. The processing described here generates biweekly wind maps during the wktwo years analysis period regardless of the satellite orbit or missing data.

SYNTHETIC APERTURE RADAR↗
DOE OSTI2016

SU-F-T-266: Dynalogs Based Evaluation of Different Dose Rate IMRT Using DVH and Gamma Index

Purpose: This work investigates the impact of low and high dose rate on IMRT through Dynalogs by evaluating Gamma Index and Dose Volume Histogram. Methods: The Eclipse™ treatment planning software was used to generate plans on prostate and head and neck sites. A range of dose rates 300 MU/min and 600 MU/min were applied to each plan in order to investigate their effect on the beam ON time, efficiency and accuracy. Each plan had distinct monitor units per fraction, delivery time, mean dose rate and leaf speed. The DVH data was used in the assessment of the conformity and plan quality.The treatments were delivered on Varian™ Clinac 2100C accelerator equipped with 120 leaf millennium MLC. Dynalogs of each plan were analyzed by MATLAB™ program. Fluence measurements were performed using the Sun Nuclear™ 2D diode array and results were assessed, based on Gamma analysis of dose fluence maps, beam delivery statistics and Dynalogs data. Results: Minor differences found by adjusted R-squared analysis of DVH’s for all the plans with different dose rates. It has been also found that more and larger fields have greater time reduction at high dose rate and there was a sharp decrease in number of control points observed in dynalog files by switching dose rate from 300 MU/min to 600 MU/min. Gamma Analysis of all plans passes the confidence limit of ≥95% with greater number of passing points in 300 MU/min dose rate plans. Conclusion: The dynalog files are compatible tool for software based IMRT QA. It can work perfectly parallel to measurement based QA setup and stand-by procedure for pre and post delivery of treatment plan.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2015

Hawaii Play Fairway Analysis: Mapped Rifts

Rifts mapped through reviewing the location of dikes and vents on the USGS 2007 Geologic Map of the State of Hawaii, as well as our assessment of topography, and, to a small extent, gravity data. Data is in shapefile format.

15 GEOTHERMAL ENERGY↗
DOE OSTI2025

Laboratory time series moisture manipulative experiment from sediment across San Antonio, Texas: time series aerobic respiration and geochemistry

This dataset supports a broader study examining the effects of wetting and drying on hyporheic zone respiration. The dataset provides data generated from a laboratory moisture manipulation experiment. The contents include time series aerobic respiration and moisture; dissolved oxygen; sediment geochemistry data; and field metadata (including qualitative information on instream and river corridor characteristics). Samples were collected as part of the WHONDRS Allison Veach collaboration (AV1). The data package associated with the AV1 study is available at https://data.ess-dive.lbl.gov/datasets/doi:10.15485/2529428. AV1 sampling occurred across 7 perennial and 7 intermittent streams in San Antonio, Texas. Each stream/site was visited both in summer during base flow (July-September 2023) and winter during peak flow (January-February 2024). This study uses subsamples from a subset of AV1 samples. The original field samples were labeled as AV1_###. Subsequent subsamples for this study were labeled as EV_###. The labels from the field samples and the EV subsamples can be mapped directly based on the digits following the prefix and underscore (i.e., EV_001 is a subsample from AV1_001). See the critical details section below for more details on sample naming. For details on how to navigate data packages generated by this project, see https://data.ess-dive.lbl.gov/portals/PNNLRiverCorridorSFA/About. This dataset is comprised of one main data folder containing (1) file-level metadata; (2) data dictionary; (3) field metadata; (4) readme; (5) field protocol; and a (6) a subfolder with sediment sample data from the incubation experiment. The sample data subfolder contains (1) effect size; (2) iron (II); (3) gravimetric moisture; (4) respiration rates; (5) raw dissolved oxygen values and plots; (6) specific conductance; (7) pH; (8) temperature; (9) a summary containing mean, median, and standard deviation values of each data type for each treatment (wet and dry); and (10) methods codes. All files are .csv or.pdf.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS2000

BOREAS RSS-20 POLDER Helicopter-Mounted Measurements of Surface BRDF

The BOREAS HYD-9 team collected data on precipitation and strearnflow over portions of the NSA and SSA. This data set contains Cartesian maps of rain accumulation for I -hour and daily periods during the summer of 1994 over the SSA only (not the full view of the radar). A parallel set of 1-hour maps for the whole radar view has been prepared and is available upon request from the HYD-09 personnel. An incidental benefit of the areal selection was the elimination of some of the less accurate data,because for various reasons the radar rain estimates degrade considerably outside a range of about 100 km. The data are available in tabular ASCII files. The data files are available on a CD-ROM (see document number 20010000884) or from the Oak Ridge National Laboratory (ORNL) Distributed Active Archive Center (DAAC).

Leroy, Marc↗
NASA NTRS2005

Spectral Ratio Imaging with Hyperion Satellite Data for Geological Mapping

Since the advent of LANDSAT I in 1972, many different multispectral satellites have been orbited by the U.S. and other countries. These satellites have varied from 4 spectral bands in LANDSAT I to 14 spectral bands in the ASTER sensor aboard the TERRA space platform. Hyperion is a relatively new hyperspectral sensor with over 220 spectral bands. The huge increase in the number of spectral bands offers a substantial challenge to computers and analysts alike when it comes to the task of mapping features on the basis of chemical composition, especially if little or no ground truth is available beforehand from the area being mapped. One approach is the theoretical approach of the modeler, where all extraneous information (atmospheric attenuation, sensor electronic gain and offset, etc.) is subtracted off and divided out, and laboratory (or field) spectra of materials are used as training sets to map features in the scene of similar composition. This approach is very difficult to keep accurate because of variations in the atmosphere, solar illumination, and sensor electronic gain and offset that are not always perfectly recorded or accounted for. For instance, to apply laboratory or field spectra of materials as data sets from the theoretical approach, the header information of the files must reflect the correct, up-to-date sensor electronic gain and offset and the analyst must pick the exact atmospheric model that is appropriate for the day of data collection in order for classification procedures to accurately match pixels in the scene with the laboratory or field spectrum of a desired target on the basis of the hyperspectral data. The modeling process is so complex that it is difficult to tell when it is operating well or determine how to fix it when it is incorrect. Recently RSI has announced that the latest version of their ENVI software package is not performing atmospheric corrections correctly with the FLAASH atmospheric model. It took a long time to determine that it was wrong, and may take an equally long time (or longer) to fix.

Vincent, Robert K.↗
NASA NTRS2010

Definition of the Flexible Image Transport System (FITS), Version 3.0

The Flexible Image Transport System (FITS) has been used by astronomers for over 30 years as a data interchange and archiving format; FITS files are now handled by a wide range of astronomical software packages. Since the FITS format definition document (the "standard") was last printed in this journal in 2001, several new features have been developed and standardized, notably support for 64-bit integers in images and tables, variable-length arrays in tables, and new world coordinate system conventions which provide a mapping from an element in a data array to a physical coordinate on the sky or within a spectrum. The FITS Working Group of the International Astronomical Union has therefore produced this new Version 3.0 of the FITS standard, which is provided here in its entirety. In addition to describing the new features in FITS, numerous editorial changes were made to the previous version to clarify and reorganize many of the sections. Also included are some appendices which are not formally part of the standard. The FITS standard is likely to undergo further evolution, in which case the latest version may be found on the FITS Support Office Web site at http://fits.gsfc.nasa.gov/, which also provides many links to FITS-related resources.

Pence, W. D.↗