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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.
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GeneLab must establish data processing pipelines for common data types including microarray, RNA-sequencing, and metagenomic profiling. Here we give an overview of current microarray and RNA-seq pipelines and discuss future pipelines including metagenomic profiling pipelines
Abstract. In the age of big data, soil data are more available and richer than ever, but – outside of a few large soil survey resources – they remain largely unusable for informing soil management and understanding Earth system processes beyond the original study. Data science has promised a fully reusable research pipeline where data from past studies are used to contextualize new findings and reanalyzed for new insight. Yet synthesis projects encounter challenges at all steps of the data reuse pipeline, including unavailable data, labor-intensive transcription of datasets, incomplete metadata, and a lack of communication between collaborators. Here, using insights from a diversity of soil, data, and climate scientists, we summarize current practices in soil data synthesis across all stages of database creation: availability, input, harmonization, curation, and publication. We then suggest new soil-focused semantic tools to improve existing data pipelines, such as ontologies, vocabulary lists, and community practices. Our goal is to provide the soil data community with an overview of current practices in soil data and where we need to go to fully leverage big data to solve soil problems in the next century.
The new code to generate light curves for GRB observed with the XRT on Swift has been distributed with the latest software release. The code has been extensively tested compared with similar output from Penn State. Adjustments in both codes were made to best represent the latest calibration information and the latest software algorithms. In this talk will be highlighted the steps taken to produce the GRB light-curves, how it is been tested for non GRB sources and last the future adjustments to be made to include a better correction for the bad columns. In addition it will be presented as a new routine developed to automatically collect spectra at different phases of the GRB decay. This new routine will be included in the next software release. The XRT pipeline at GSFC will implement the production of the data files containing the level 3 products. The talk will discuss the current status and the additional data files planned.
This document, the Kepler Instrument Handbook (KIH), is for Kepler and K2 observers, which includes the Kepler Science Team, Guest Observers (GOs), and astronomers doing archival research on Kepler and K2 data in NASAs Astrophysics Data Analysis Program (ADAP). The KIH provides information about the design, performance, and operational constraints of the Kepler flight hardware and software, and an overview of the pixel data sets available. The KIH is meant to be read with these companion documents:1. Kepler Data Processing Handbook (KSCI-19081) or KDPH (Jenkins et al., 2016). The KDPH describes how pixels downlinked from the spacecraft are converted by the Kepler Data Processing Pipeline (henceforth just the pipeline) into the data products delivered to the MAST archive. 2. Kepler Archive Manual (KDMC-10008) or KAM (Thompson et al., 2016). The KAM describes the format and content of the data products, and how to search for them.3. Kepler Data Characteristics Handbook (KSCI-19040) or KDCH (Christiansen et al., 2016). The KDCH describes recurring non-astrophysical features of the Kepler data due to instrument signatures, spacecraft events, or solar activity, and explains how these characteristics are handled by the pipeline.4. Kepler Data Release Notes 25 (KSCI-19065) or DRN 25 (Thompson et al., 2015). DRN 25 describes signatures and events peculiar to individual quarters, and the pipeline software changes between a data release and the one preceding it.Together, these documents supply the information necessary for obtaining and understanding Kepler results, given the real properties of the hardware and the data analysis methods used, and for an independent evaluation of the methods used if so desired.
Operations of multi-reservoir systems are challenged in-part by the interplay of complex physical processes functioning within the watershed. The employment of intelligent systems can be of aid by linking environmental sensing, information technology, data analytics, simulation and decision support to achieve a data-to-decision flow of information. A further challenge is that watershed resources are managed for multiple purposes requiring some level of coordination among numerous resource managers, asset operators and users. System intelligence in this context relies on shared community platforms (data portals, community models), and coordinated communication between decision makers. Opportunities to enrich watershed intelligence has been the subject of a roadmapping exercise for the Department of Energy’s Water Power Technologies Office which has relied on broad stakeholder engagement. Initial phases of engagement involved personal interviews and a series of virtual group meetings, which focused on identifying opportunities to improve the intelligence of the physical infrastructure within our watersheds—examples of feedback include improved sensing of snowpack and runoff, data standards for facilitated data sharing, and better forecasting tools. The latter phase of engagement involved the conduct of a case study in the Upper Colorado River basin where key stakeholders were interviewed to map how their decisions are informed by intelligence from other basin stakeholders. Our presentation will highlight the interdisciplinary flow of information in complex watershed systems and identify physical and institutional opportunities toward the strategic operation of water infrastructure.
This paper presents an integrated technical framework to protect pipelines against both malicious intrusions and piping degradation using a distributed fiber sensing technology and artificial intelligence. A distributed acoustic sensing (DAS) system based on phase-sensitive optical time-domain reflectometry (φ-OTDR) was used to detect acoustic wave propagation and scattering along pipeline structures consisting of straight piping and sharp bend elbow. Signal to noise ratio of the DAS system was enhanced by femtosecond induced artificial Rayleigh scattering centers. Data harnessed by the DAS system were analyzed by neural network-based machine learning algorithms. The system identified with over 85% accuracy in various external impact events, and over 94% accuracy for defect identification through supervised learning and 71% accuracy through unsupervised learning.
The large-scale analysis task of deciphering gravitational wave signals in the LISA data stream will be difficult, requiring a large amount of computational resources and extensive development of computational methods. Its high dimensionality, multiple model types, and complicated noise profile require a global fit to all parameters and input models simultaneously. In this work, we detail our global fit algorithm, called “Erebor,” designed to accomplish this challenging task. It is capable of analysing current state-of-the-art datasets and then growing into the future as more pieces of the pipeline are completed and added. We describe our pipeline strategy, the algorithmic setup, and the results from our analysis of the LDC2A Sangria dataset, which contains Massive Black Hole Binaries, compact Galactic Binaries, and a parameterized noise spectrum whose parameters are unknown to the user. The Erebor algorithm includes three unique and very useful contributions: GPU acceleration for enhanced computational efficiency; ensemble MCMC sampling with multiple MCMC walkers per temperature for better mixing and parallelized sample creation; and special online updates to reversible-jump (or trans-dimensional) sampling distributions to ensure sampler mixing and accurate initial estimates for detectable sources in the data. We recover posterior distributions for all 15 (6) of the injected MBHBs in the LDC2A training (hidden) dataset. We catalog ∼12000 Galactic Binaries (∼8000 as high confidence detections) for both the training and hidden datasets. All of the sources and their posterior distributions are provided in publicly available catalogs.
The large-scale analysis task of deciphering gravitational-wave signals in the LISA data stream will be difficult, requiring a large amount of computational resources and extensive development of computational methods. Its high dimensionality, multiple model types, and complicated noise profile require a global fit to all parameters and input models simultaneously. In this work, we detail our global fit algorithm, called “Erebor,” designed to accomplish this challenging task. It is capable of analyzing current state-of-the-art datasets and then growing into the future as more pieces of the pipeline are completed and added. We describe our pipeline strategy, the algorithmic setup, and the results from our analysis of the LDC2A Sangria dataset, which contains massive black hole binaries, compact galactic binaries, and a parametrized noise spectrum whose parameters are unknown to the user. The Erebor algorithm includes three unique and very useful contributions: GPU acceleration for enhanced computational efficiency; ensemble Markov Chain Monte Carlo (MCMC) sampling with multiple MCMC walkers per temperature for better mixing and parallelized sample creation; and special online updates to reversible-jump (or transdimensional) sampling distributions to ensure sampler mixing and accurate initial estimates for detectable sources in the data.We recover posterior distributions for all 15 (6) of the injected massive black hole binaries (MBHB) in the LDC2A training (hidden) dataset. We catalog ∼12000 galactic binaries (∼8000 as high confidence detections) for both the training and hidden datasets. All of the sources and their posterior distributions are provided in publicly available catalogs.
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Structure determination workloads in neutron diffractometry are computationally expensive and routinely require several hours to many days to determine the structure of a material from its neutron diffraction patterns. The potential for machine learning models trained on simulated neutron scattering patterns to significantly speed up these tasks have been reported recently. However, the amount of simulated data needed to train these models grows exponentially with the number of structural parameters to be predicted and poses a significant computational challenge. To overcome this challenge, we introduce a novel batch-mode active learning (AL) policy that uses uncertainty sampling to simulate training data drawn from a probability distribution that prefers labelled examples about which the model is least certain. We confirm its efficacy in training the same models with ∼ 75% less training data while improving the accuracy. We then discuss the design of an efficient stream-based training workflow that uses this AL policy and present a performance study on two heterogeneous platforms to demonstrate that, compared with a conventional training workflow, the streaming workflow delivers ∼ 20% shorter training time without any loss of accuracy.
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Post-Translational Modifications (PTMs) are covalent changes to amino acids that occur after protein synthesis, including covalent modifications on side chains and peptide backbones. Many PTMs profoundly impact cellular and molecular functions and structures, and their significance extends to evolutionary studies as well. In light of these implications, we have explored how artificial intelligence (AI) can be utilized in researching PTMs. Initially, rationales for adopting AI and its advantages in understanding the functions of PTMs are discussed. Then, various deep learning architectures and programs, including recent applications of language models, for predicting PTM sites on proteins and the regulatory functions of these PTMs are compared. Finally, our high-throughput PTM-data-generation pipeline, which formats data suitably for AI training and predictions is described. We hope this review illuminates areas where future AI models on PTMs can be improved, thereby contributing to the field of PTM bioengineering.
We introduce the cosmological HYPER code based on an innovative hydro-particle-mesh (HPM) algorithm for efficient and rapid simulations of gas and dark matter. For the HPM algorithm, we update the approach of Gnedin & Hui to expand the scope of its application from the lower-density intergalactic medium (IGM) to the higher-density intracluster medium (ICM). While the original algorithm tracks only one effective particle species, the updated version separately tracks the gas and dark matter particles, as they do not exactly trace each other on small scales. For the approximate hydrodynamics solver, the pressure term in the gas equations of motion is calculated using robust physical models. In particular, we use a dark matter halo model, ICM pressure profile, and IGM temperature–density relation, all of which can be systematically varied for parameter-space studies. We show that the HYPER simulation results are in good agreement with the halo model expectations for the density, temperature, and pressure radial profiles. Simulated galaxy cluster scaling relations for Sunyaev–Zel’dovich (SZ) and X-ray observables are also in good agreement with mean predictions, with scatter comparable to that found in hydrodynamic simulations. HYPER also produces lightcone catalogs of dark matter halos and full-sky tomographic maps of the lensing convergence, SZ effect, and X-ray emission. These simulation products are useful for testing data analysis pipelines, generating training data for machine learning, understanding selection and systematic effects, and for interpreting astrophysical and cosmological constraints.
The Kepler spacecraft was repurposed for the K2 mission a year after the failure of the second of Kepler's four reaction wheels in 2013 May. The purpose of this document, the K2 Handbook (K2H), is to describe features of K2 operations, performance, data analysis, and archive products which are common to most K2 campaigns, but different in degree or kind from the corresponding features of the Kepler mission.The K2 Handbook is meant to be read with the following companion documents, which are all publicly available:1. Kepler Instrument Handbook (KSCI-19033) provides information about the design, performance and operational constraints of the instrument and an overview of the types of pixel data that are available.2. Kepler Data Processing Handbook (KSCI-19081) describes how pixels downloaded from the spacecraft are converted by the Kepler Data Processing Pipeline into the data products available at the MAST archive3. Kepler Archive Manual (KDMC-100008) describes the format and content of the data products and how to search for them.4. Kepler Data Characteristics Handbook (KSCI-19040) describes recurring non-astrophysical features of the Kepler data due to instrument signatures, spacecraft events or solar activity and explains how these characteristics are handled by the Kepler pipeline.5. The Ecliptic Plane Input Catalog describes the provenance of the positions and Kepler magnitudes used for target management and aperature photometry.6. K2 Data Release Notes (DRN) are on-line documents available on the K2 science website which describe the data inventory, instrumental signatures and events peculiar to individual observing campaigns.
ISS users generate scientific data files on orbit that require console operators to retrieve and deliver them for analysis. Automating the downlink process using TReK CFDP and DTN provides ground flight controllers and PD teams increased efficiency, reducing workload and resulting in cost savings without reduced services provided.
ABSTRACT High precision time-series photometry from space is being used for a number of scientific cases. In this context, the recently launched CHaracterizing ExOPlanet Satellite (CHEOPS) (ESA) mission promises to bring 20 ppm precision over an exposure time of 6 h, when targeting nearby bright stars, having in mind the detailed characterization of exoplanetary systems through transit measurements. However, the official CHEOPS (ESA) mission pipeline only provides photometry for the main target (the central star in the field). In order to explore the potential of CHEOPS photometry for all stars in the field, in this paper, we present archi, an additional open-source pipeline module1 to analyse the background stars present in the image. As archi uses the official data reduction pipeline data as input, it is not meant to be used as an independent tool to process raw CHEOPS data but, instead, to be used as an add-on to the official pipeline. We test archi using CHEOPS simulated images, and show that photometry of background stars in CHEOPS images is only slightly degraded (by a factor of 2–3) with respect to the main target. This opens a potential for the use of CHEOPS to produce photometric time-series of several close-by targets at once, as well as to use different stars in the image to calibrate systematic errors. We also show one clear scientific application where the study of the companion light curve can be important for the understanding of the contamination on the main target.
This describes the collection of data and the processing done on it so when researchers around the world get the Kepler data sets (which are a set of pixels from the telescope of a particular target (star, galaxy or whatever) over a 3 month period) they can adjust their algorithms fro things that were done (like subtracting all of one particular wavelength for example). This is used to calibrate their own algorithms so that they know what it is they are starting with. It is posted so that whoever is accessing the publicly available data (not all of it is made public) can understand it .. (most of the Kepler data is under restriction for 1 - 4 years and is not available, but the handbook is for everyone (public and restricted) The Data Analysis Working Group have released long and short cadence materials, including FFls and Dropped Targets for the Public. The Kepler Science Office considers Data Release 3 to provide "browse quality" data. These notes have been prepared to give Kepler users of the Multimission Archive at STScl (MAST) a summary of how the data were collected and prepared, and how well the data processing pipeline is functioning on flight data. They will be updated for each release of data to the public archive and placed on MAST along with other Kepler documentation, at http:// archive.stsci.edu/kepler/documents.html .Data release 3 is meant to give users the opportunity to examine the data for possibly interesting science and to involve the users in improving the pipeline for future data releases. To perform the latter service, users are encouraged to notice and document artifacts, either in the raw or processed data, and report them to the Science Office.