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9,882 results for “scales”
Data from : Classifying wetland‐related land cover types and habitats using fine‐scale lidar metrics derived from country‐wide Airborne Laser Scanning
<p>This data repository contains the processed lidar metrics for characterizing the habitat structure for classifying main land cover and habitat types in the Lauwersmeer area in the northern part of the Netherlands in the province of Groningen (5754 ha). The lidar metrics were derived from Airborne Laser Scanning (ALS) data using the Actueel Hoogtebestand Nederland 2 (AHN2) openly available dataset from https://www.pdok.nl/. </p> <p>The derived lidar metrics saved in *.grd file format and contain 32 bands. Each band represents a lidar metric and the water surface was masked out in the dataset. The *l1* in the file name indicates that the file was used for level 1 (wetland) classification and *l23* used for level 2 (land cover types within wetland) and level 3 (reedbed habitats) classification. The lidar metrics were calculated using lidR (<a href="https://github.com/Jean-Romain/lidR">https://github.com/Jean-Romain/lidR</a>) software package. Further details related to the lidar metrics extraction can be found at <a href="https://github.com/eEcoLiDAR/PhDPaper1_Classifying_wetland_habitats">https://github.com/eEcoLiDAR/PhDPaper1_Classifying_wetland_habitats</a> Github repository.</p> <p> </p>
A large-scale wide-baseline light field dataset - Part I
<p>This dataset is the Part I of a large-scale, synthetic wide-baseline light field dataset (called WLF), including 345 light fields. </p> <p>Each light field provides 9x9 angular (RGB) images and ground truth disparities. This light field dataset involves the spatial resolution (512x512) images only.</p> <p>The dataset is originally created for training the deep learning-based models for depth estimation. You might use this dataset for other tasks if possible.</p> <p>You might also have a try to play with this dataset using our code in https://github.com/YanWQ/LLF-Net.</p>
Data from: An effective method for ecosystem-scale manipulation of bird abundance and species richness
Manipulation experiments are a cornerstone of ecological research, but can be logistically challenging to execute – particularly when they are intended to isolate the ecological role of large, vagile species, like birds. Despite indirect evidence that birds are influential in many ecosystems, large-scale, multi-year bird manipulation experiments are rare. When these studies are conducted, they are typically realized with caged or netted exclosures, an approach that can be expensive, risky for wildlife, and difficult to maintain. In cases where caged exclosures are not appropriate, alternate approaches are needed to allow rigorous empirical studies on the ecological role of birds. Here, we present and validate a method for experimentally increasing the abundance and richness of birds at the scale of entire aquatic ecosystems. Unlike bird exclusion, this approach is experimentally tractable, appealing to land managers, and possible to deploy over large spatial scales. We tested the efficacy of our approach for increasing bird abundance and species richness at 16 central California ponds. Based on bird visitation data obtained by summer camera trapping, our approach significantly increased bird species richness and abundance at manipulated ponds compared to control ponds. Attractant treatments mitigated the negative effects of a major drought on bird species richness, and generated a near-doubling of bird abundance in the presence of attractants. Treatments had no effect on most mammal species, with the exception of ground squirrels, which increased in abundance in the presence of attractants. These results suggest that attractants are effective in increasing bird abundance and richness. We encourage researchers to consider this approach for experimentally isolating the ecological role of birds in aquatic and open terrestrial ecosystems, especially in cases where cost or logistical constraints preclude the use of caged or netted exclosures.
Animations: Turbulence sets the length scale for planetesimal formation:Local 2D simulations of streaming instability and planetesimal formation
<p>This repository includes three animations discussed in the accepted version of ''Turbulence sets the length scale for planetesimal formation:Local 2D simulations of streaming instability and planetesimal formation" to appear in the Astrophysical Journal. </p> <p>Short descriptions of the animations are as follows:</p> <p>Movie 1: Simulations Ae3L0005 and Ae3L0005. Both use $\St= 0.1$ particles, but only the larger box shows collapse and planetesimal formation. See also: <a href="https://youtu.be/gkHiluqH8HY">https://youtu.be/gkHiluqH8HY</a> </p> <p>Movie 2: The evolution of $\St= 0.1$ pebbles for all 6 different box sizes in Table 1. See also: <a href="https://youtu.be/nA87-9_trUc">https://youtu.be/nA87-9_trUc</a></p> <p>Movie 3: The evolution of $\St= 0.01$ pebbles. See also: <a href="https://youtu.be/CCywDPKVU8w">https://youtu.be/CCywDPKVU8w</a></p>
Computed results for Bayesian genome scale modelling temperature effect on yeast metabolism
<p>This repository contains the computed results for reproducing the figures in the manuscript "Li G., et al. Bayesian genome scale modelling identifies thermal determinants of yeast metabolism". The scripts can be found in Github (<a href="https://github.com/Gangl2016/BayesianGEM">https://github.com/Gangl2016/BayesianGEM</a>)</p>
The genome of the Xingu Scale-backed Antbird (Willisornis vidua nigrigula) reveals lineage-specific adaptations
<p>Antbirds (Thamnophilidae) are a large neotropical family of passerine bird renowned for the ant-following foraging strategies of several members of this clade. The high diversity of antbirds provides ample opportunity for speciation studies, however these studies can be hindered by the lack of an annotated antbird reference genome. In this study, we produced a high-quality annotated reference genome for the Xingu Scale-backed Antbird (<em>Willisornis vidua nigrigula</em>) using 10X Genomics Chromium linked-reads technology. The assembly is 1.09 Gb, with a scaffold N50 of 12.1 Mb and 17,475 annotated protein coding genes. We compare the proteome of <em>W. v. nigrigula</em> to several other passerines, and produce annotations for two additional antbird genomes in order to identify genes under lineage-specific positive selection and gene families with evidence for significant expansions in antbirds. Several of these genes have functions potentially related to the lineage-specific traits of antbirds, including adaptations for thermoregulation in a humid tropical environment.</p>
Supporting material for Shintergy sinchronized brain and gravitational influence over laser, weight scale and chronometers
<p>Supporting material for Shintergy sinchronized brain and gravitational influence over laser, weight scale and chronometers</p> <p> </p> <p>ResearchGate paper and project:</p> <p>https://www.researchgate.net/publication/343671561_Effects_of_a_Shintergy-sinchronized_brain_over_a_laser_beam_chronometers_and_a_scale_weight_a_Possible_Fractal_Structure_of_Consciousness</p>
Dataset for the paper "Ripa M, Di Felice LJ, Giampietro M (2021). The energy metabolism of post-industrial economies. A framework to account for externalization across scales. Energy, 214." https://doi.org/10.1016/j.energy.2020.118943
<p>This repository contains the data needed to reproduce the results in: </p> <p>Ripa M, Di Felice LJ, Giampietro M (2021). The energy metabolism of post-industrial economies. A framework to account for externalization across scales. Energy, 214." https://doi.org/10.1016/j.energy.2020.118943</p> <p>The dataset was also used for a case study in "Di Felice L., Dunlop T., Giampietro M., Kovacic Z., Renner A., Ripa M., Velasco-Fernández R. – Report on the Quality Check of the Robustness of the Narrative behind Energy Directives. MAGIC (H2020–GA 689669) Project Deliverable 5.4, 30 November 2018". (link: https://magic-nexus.eu/documents/d54-report-narratives-behind-energy-directives).</p> <p>Sources of data are specified in the dataset (under tab "References")</p>
ToxicoDB: an integrated database to mine and visualize large-scale toxicogenomic datasets (TGGATEs human dataset)
<p>This data was generated by Igarashi Y, Nakatsu N, Yamashita T, Ono A, Ohno Y, Urushidani T, Yamada H. Open TG-GATEs: a large-scale toxicogenomics database. Nucleic Acids Res [Internet]. 2015 Jan;43(Database issue):D921–7. Available from: http://dx.doi.org/10.1093/nar/gku955 PMCID: PMC4384023. The data have been curated and analyzed using our open-source R package, <em>ToxicoGx</em> (<a href="https://github.com/bhklab/ToxicoGx">https://bioconductor.org/packages/devel/bioc/html/ToxicoGx.html</a>), and are available publicly in the <em>ToxicoDB </em>web application (<a href="http://www.toxicodb.ca">www.toxicodb.ca</a>).</p>
Dataset for Pore-scale investigation of forced imbibition in porous media
<p>Dataset for the manuscript titled" Pore-scale investigation of forced imbibition in porous media"</p>
Chromosome-scale assembly of winter oilseed rape Brassica napus
<p>The files correspond to data and results referenced in research article titled "Chromosome-scale assembly of winter oilseed rape Brassica napus".</p> <p>Data files below were used in the scaffolding process of genome assembly:</p> <ol> <li>Genetic maps (csv) <ul> <li>ExR53-DH_60kSNPmap</li> <li>ExV8-DH_60kSNPmap</li> </ul> </li> </ol> <p>Result files below are assembled sequences of the genome and the predicted annotation:</p> <ol> <li>Genome assembly (Express617_v1.fa.gz)</li> <li>Predicted coding sequences (Express617_v1_cds.fa.gz)</li> <li>Predicted coding sequences (Express617_v1_gene.gff3.gz)</li> <li>Predicted protein sequences (Express617_v1_protein.fa.gz)</li> <li>Predicted repetitive elements (Express617_v1_repeats.gff.gz)</li> </ol>
Participatory Conceptual Diagrams to research small-scale farmers´ information sharing for adapting to climate change in Mozambique
<p>Data collected from focus groups discussions with local communities of 4 distrcits of Mozambique in November 2019. The data are a series of conceptual maps describing a) the farming practices improvements most needed to adapt to climate change, and b) the most useful information for enabling the selected improvements, the most effective information sharing sources - e.g. institutional actors, members of the community, technical support, etc. - and means of communication - e.g. radio, mobile phone, word-of-mouth, etc. For the second purpose, connections were drawn by the members of the community between information sources and the actions needed for climate change adaptation. Participants also assigned a weight to the connections, selecting between: strong, medium or a weak connection.</p> <p>Notes about the discussions and opinions expressed by participants, written down by the research team, are also included.</p> <p>Together with the data, PDF files describing metadata and detailed methodology followed are included.</p>
Catchment-scale estimates of Amazon evapotranspiration
<p>Amazon basin-mean monthly estimates of evapotranspiration estimated from catchment-balance analysis, satellites (MODIS, P-LSH and GLEAM), reanalysis (ERA5) and the CMIP5 and CMIP6 climate models. Catchment level estimates of climate variables that influence ET are also included (precipitation, radiation and leaf area index). Full details of all source datasets are provided in 'Evapotranspiration in the Amazon: spatial patterns, seasonality and recent trends in observations, reanalysis and CMIP models' in Hydrology and Earth System Sciences, <a href="https://doi.org/10.5194/hess-2020-523">https://doi.org/10.5194/hess-2020-523</a>.</p>
A mixed mode cohesive model for FRP laminates incorporating large scale bridging behaviour - Datasets
<p>This data upload includes the experimental results from delaminating FRP-laminates. The experiment consists of DCB specimens where the beam ends are loaded with bending moments. A set-up of LVDTs and a clip-on extensometer are used to calculate the normal and tangential opening displacements at the crack-end.</p> <ul> <li>The test specimens are described in the file "CHO test matrix 130405B.xlsx"</li> <li>The load-displacement data for all specimens are given in the folder "DCB UBM - Experimental results.zip"</li> <li>Acoustic emission recording from the tests are given in the folder "DCB UBM - Acoustic Emission.zip"</li> <li>A set of images for each specimen during testing is given in the folder "DCB Images.zip"</li> </ul> <p>This test series is examined and described in the following peer reviewed papers:</p> <p>R.K. Joki, F. Grytten, B. Hayman, B.F. Sørensen, <em>A mixed mode cohesive model for FRP laminates incorporating large scale bridging behaviour</em>, Engineering Fracture Mechanics, 239, November 2020, <a href="https://doi.org/10.1016/j.engfracmech.2020.107274">https://doi.org/10.1016/j.engfracmech.2020.107274</a></p> <p>R.K. Joki, F. Grytten, B. Hayman, B.F. Sørensen, <em>Determination of a cohesive law for delamination modelling – Accounting for variation in crack opening and stress state across the test specimen width</em>, Composites Science and Technology, 128, 18 May 2016, <a href="https://doi.org/10.1016/j.compscitech.2016.01.026">https://doi.org/10.1016/j.compscitech.2016.01.026</a></p>
The dataset of figures for "The GPU version of LICOM3 under HIP framework and its large-scale application" (updated)
<p>A high-resolution (1/20°) global ocean general circulation model with Graphics processing units (GPUs) code implementations is developed based on the LASG/IAP Climate system Ocean Model version 3 (LICOM3) under Heterogeneous-compute Interface for Portability (HIP) framework. The dynamic core and physics package of LICOM3 are both ported to the GPU, and 3-dimensional parallelization is applied. The HIP version of the LICOM3 (LICOM3-HIP) is 42 times faster than what the same number of CPU cores dose, when 384 AMD GPUs and CPU cores are used. The LICOM3-HIP has excellent scalability; it can still obtain speedup of more than four on 9216 GPUs comparing to 384 GPUs. In this phase, we successfully performed a test of 1/20° LICOM3-HIP using 6550 nodes and 26200 GPUs, and at the grand scale, the model’s time to solution can still obtain an increasing, about 2.72 simulated years per day (SYPD). The high performance was due to putting almost all of computation processes inside GPUs, and thus greatly reduces the time cost of data transfer between CPUs and GPUs. At the same time, a 14-year spin-up integration following the phase 2 of Ocean Model Intercomparison Project (OMIP-2) protocol of surface forcing has been conducted, and the preliminary results have been evaluated. We found that the model results have little differences from the CPU version. Further comparison with observations and lower-resolution LICOM3 results suggests that the 1/20° LICOM3-HIP can not only reproduce the observations, but also produce much smaller scale activities, such as submesoscale eddies and frontal scales structures.</p>
Large-Scale Gravitational Lens Modeling with Bayesian Neural Networks for Accurate and Precise Inference of the Hubble Constant - Datasets, Trained Models, BNN Samples, and MCMC Chains
<p>We publish the training/validation/test datasets, trained model weights, configuration files, Bayesian neural network samples, and MCMC chains used to produce the figures in the LSST DESC paper, "Large-Scale Gravitational Lens Modeling with Bayesian Neural Networks for Accurate and Precise Inference of the Hubble Constant." They are formatted to be used with the DESC package "H0rton" (<a href="https://github.com/jiwoncpark/h0rton">https://github.com/jiwoncpark/h0rton</a>). Additional descriptions can be found in the README. Please contact Ji Won Park (@jiwoncpark) on GitHub or <a href="https://github.com/jiwoncpark/h0rton/issues">make an issue</a> for any questions.</p>
[Database] Urban Water Consumption at Multiple Spatial and Temporal Scales. A Review of Existing Datasets
<p>This file contains the complete catalog of datasets and publications reviewed in: Di Mauro A., Cominola A., Castelletti A., Di Nardo A.. <em>Urban Water Consumption at Multiple Spatial and Temporal Scales. A Review of Existing Datasets.</em> Water 2021.The <strong>complete catalog</strong> contains:</p> <ul> <li>92 state-of-the-art water demand datasets identified at the district, household, and end use scales;</li> <li>120 related peer-reviewed publications;</li> <li>57 additional datasets with electricity demand data at the end use and household scales.</li> </ul> <p>The following <strong>metadata</strong> are reported, for each <strong>dataset</strong>:</p> <ul> <li>Authors</li> <li>Year</li> <li>Location</li> <li>Dataset Size</li> <li>Time Series Length</li> <li>Time Sampling Resolution</li> <li>Access Policy.</li> </ul> <p>The following <strong>metadata </strong>are reported, for each <strong>publication</strong>:</p> <ul> <li>Authors</li> <li>Year</li> <li>Journal</li> <li>Title</li> <li>Spatial Scale</li> <li>Type of Study: Survey (S) / Dataset (D)</li> <li>Domain: Water (W)/Electricity (E)</li> <li>Time Sampling Resolution</li> <li>Access Policy</li> <li>Dataset Size</li> <li>Time Series Length</li> <li>Location</li> </ul> <p><strong>Authors:</strong><br> Anna Di Mauro - Department of Engineering | Università degli studi della Campania Luigi Vanvitelli (Italy) | <a href="mailto:anna.dimauro@unicampania.it">anna.dimauro@unicampania.it</a>;<br> Andrea Cominola - Chair of Smart Water Networks | Technische Universität Berlin - Einstein Center Digital Future (Germany) | <a href="mailto:andrea.cominola@tu-berlin.de">andrea.cominola@tu-berlin.de</a>; <br> Andrea Castelletti - Department of Electronics, Information and Bioengineering | Politecnico di Milano (Italy) | <a href="mailto:andrea.castelletti@polimi.it">andrea.castelletti@polimi.it</a><br> Armando Di Nardo -Department of Engineering | Università degli studi della Campania Luigi Vanvitelli (Italy) | <a href="mailto:armando.dinardo@unicampania.it">armando.dinardo@unicampania.it</a></p> <p><strong>Citation and reference:</strong></p> <p>If you use this database, please consider citing <a href="https://www.mdpi.com/2073-4441/13/1/36">our paper</a> </p> <p>Di Mauro, A., Cominola, A., Castelletti, A., & Di Nardo, A. (2021). Urban Water Consumption at Multiple Spatial and Temporal Scales. A Review of Existing Datasets. Water, 13(1), 36, https://doi.org/10.3390/w13010036</p> <p><strong>Updates and Contributions:</strong></p> <p>The catalogue stored in this public repository can be collaboratively updated as more datasets become available. The authors will periodically update it to a new version. </p> <p>New requests can be submitted to the authors, so that the dataset collection can be improved by different contributors. Contributors will be cited, step by step, in the updated versions of the dataset catalogue.</p> <p><strong>Updates history:</strong></p> <ol> <li>March 1st, 2021 - Pacheco, C.J.B., Horsburgh, J.S., Tracy, J.R. (Utah State University, Logan, UT - USA) --- The dataset associated with paper <a href="https://doi.org/10.3390/s20133655">Bastidas Pacheco, C.J.; Horsburgh, J.S.; Tracy, R.J.. A Low-Cost, Open Source Monitoring System for Collecting High Temporal Resolution Water Use Data on Magnetically Driven Residential Water Meters. Sensors 2020, 20, 3655.</a> is published in the HydroShare repository, where it is available as an OPEN dataset. Data can be found here: <a href="https://doi.org/10.4211/hs.4de42db6485f47b290bd9e17b017bb51">https://doi.org/10.4211/hs.4de42db6485f47b290bd9e17b017bb51</a></li> </ol>
The Secret Life of Software Vulnerabilities: A Large-Scale Empirical Study
<p>Online appendix of the paper entitled: "The Secret Life of Software Vulnerabilities: A Large-Scale Empirical Study". It contains all scripts and data required to replicate the four research questions of the study.</p> <p>Abstract: Software vulnerabilities are weaknesses in source code that can be potentially exploited to cause loss or harm. While researchers have been devising a number of methods to deal with vulnerabilities, there is still a noticeable lack of knowledge on their software engineering life cycle, for example how vulnerabilities are introduced and removed by developers. This information can be exploited to design more effective methods for vulnerability prevention and detection, as well as to understand the granularity that these methods should aim at. To investigate the life cycle of software vulnerabilities, we focus on how, when, and under which circumstances vulnerabilities are introduced in software projects, as well as whether, after how long, and how they are removed. We consider 4,097 vulnerabilities with public patches from the National Vulnerability Database—pertaining to 1,163 open-source software projects on GITHUB—and define a six-step process that involves both automated parts (e.g., using the SZZ algorithm to find the vulnerability-inducing commits) and manual analyses (e.g., how vulnerabilities were fixed). The investigated vulnerabilities can be classified in 148 categories, take on average 4.19 commits before being introduced, and remain unfixed for a median of 1,506.50 commits and 691.50 days. Most of them are introduced by developers with high workload, often when doing maintenance activities, and removed with mostly with the addition of new source code aiming at implementing further checks on inputs. We conclude by distilling practical implications on when and how vulnerability detectors should work to better assist developers in early detecting these issues.</p>
Raw Data related to Research Article: Scaling of metal-clad InP nanodisk lasers: optical performance and thermal effects, Optics Express, volume 29, issue 3, 2021
<p>These are the plotted and raw data used to obtain figures shown in:</p> <p>P. Tiwari, P. Wen, D. Caimi, S. Mauthe, N. Vico Triviño, M. Sousa, and K. E. Moselund, Scaling of metal-clad InP nanodisk lasers: optical performance and thermal effects., Optics Express, volume 29, issue 3, 2021</p> <p>Please comply with copyright rules of the Optical Society of America under the terms of the OSA Open Access Publishing Agreement.:</p> <p>https://www.osapublishing.org/library/license_v1.cfm#VOR-OA</p> <p> </p>
Fine-scale changes in speed and altitude suggest protean movements in homing pigeon flights
<p>The power curve provides a basis for predicting adjustments that animals make in flight speed, for example in relation to wind, distance, habitat foraging quality and objective. However, relatively few studies have examined how animals respond to the landscape below them, which could affect speed and power allocation through modifications in climb rate and perceived predation risk. We equipped homing pigeons (<i>Columba livia</i>) with high-frequency loggers to examine how flight speed, and hence effort, varies in relation to topography and land cover. Pigeons showed mixed evidence for an energy-saving strategy, as they minimized climb rates by starting their ascent ahead of hills, but selected rapid speeds in their ascents. Birds did not modify their speed substantially in relation to land cover, but used higher speeds during descending flight, highlighting the importance of considering the rate of change in altitude before estimating power use from speed. Finally, we document an unexpected variability in speed and altitude over fine scales; a source of substantial energetic inefficiency. We suggest this may be a form of protean behaviour adopted to reduce predation risk when flocking is not an option, and that such a strategy could be widespread.</p>
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.