Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
1,028
datasets available to search
ShareScore release 0.7.1
Dataset results
1,028 results for “simulation model”
Ocean Currents from eddy-resolving model simulations
<p>This data set includes the model data used in the paper by Barnier et al. (2020) <strong>"Modelling the impact of flow-driven turbine power plants on great wind-driven ocean currents and the assessment of their energy potential"</strong> to appear in Nature Energy in 2020. It contains the ocean currents produced by eddy-resolving model simulations in the regions of the Gulf Stream and Kuroshio. Two one year long simulations are available. A Control simulation, and a Turbine simulation. In the Turbine simulation, virtual large turbine power plants (TPPs) are implemented at given locations.The effects of the TPPs on the flow is performed in the study of Barnier et al. (2020) by comparing the Control and the Turbine simulations.</p>
Model simulation data used in "Coupling aerosols to (cirrus) clouds in the global aerosol-climate model EMAC-MADE3" (Righi et al., Geosci. Model Dev., 2020)
<p>This dataset contains the output of the EMAC global model simulations analysed and discussed in Righi et al. (<i>Geosci. Model Dev.</i>, 2020). An overview of the numerical experiments performed for this study is given in the file "experiments.dat".</p>
Data from MECO(n) model simulations on "Urban greenhouse gas emissions from the Berlin area: A case study using airborne CO2 and CH4 in situ observations in summer 2018"
<p>This tar-files contain the results of the MECO(n) model, which are published in</p> <p>T. Klausner, M. Mertens, H. Huntrieser, M. Galkowski, G. Kuhlmann, R. Baumann, A. Fiehn, P. Jöckel, M. Pühl, and A. Roiger: Urban greenhouse gas emissions from the Berlin area: A case study using airborne CO<sub>2</sub> and CH<sub>4</sub> in situ observations in summer 2018, Elementa: Science of the Anthropocene (Ref.: Ms. No. ELEMENTA-D-19-00074R1), 2019.</p>
Inferring macroevolutionary parameters from on a model of adaptive radiation by Approximate Bayesian Computation - ABC Simulations
<p>Recent advances in DNA sequencing are providing increasingly accurate phylogenetic trees to study, but understanding the evolutionary forces at play in different contexts remains a huge challenge. To tackle this issue, we applied an Bayesian approach to an existing model of phenotypic and species diversification [1] in order to retrieve 11 underlying parameters (such as basal speciation and extinction rates, but also competition strength) from phylogenetic trees with known traits values at the tips.</p> <p>This dataset corresponds to the Approximate Bayesian Computation simulations realized for the inference.</p>
Idealised ocean model sector simulations
<p>This repository contains model output for a series of `MOM6` ocean model simulations.<br> These simulations use a northern hemisphere sector domain to test buoyancy wind-driven gyres.<br> Wind forcing is achieved through a zonal wind stress that has maximum value ($\tau_0$) at mid-latitudes.<br> Thermal forcing is achieved by restoring towards a prescribed SST profile, at a rate proportional to `FLUXCONST`.<br> The southern boundary and upper several hundred meters have elevated diffusivity.</p> <p>See README files (.md or .pdf) for more information.</p>
Experimental and Simulation Results of "Hemodynamic study in 3D printed stenotic coronary artery models: experimental validation and transient simulation"
<p>This repository contains the experimental and simulation results of the submitted article "Hemodynamic study in 3D printed stenotic coronary artery models: experimental validation and transient simulation" by Carvalho, V., Rodrigues, N., Ribeiro, R., Costa, P., Lima, R., Teixeira, S. </p>
Model simulation data used in "Attributing ozone and its precursors to land transport emissions in Europe and Germany" (Mertens et al., ACP, 2020)
<p>This dataset contains the output of the MECO(n) regional model simulations analysed and discussed in Mertens et al. (ACP., 2020). An overview of the numerical experiments is given in the article. The README files in the dataset give additional information about the metadata.</p>
Data associated with the publication titled The impact of resolving sub-kilometer processes on aerosol-cloud interactions in global model simulations
<p>Datasets and scripts that are used in the journal article The impact of resolving sub-kilometer processes on aerosol-cloud interactions in global model simulations</p>
A model of the optimal selection of crypto assets - simulation code
<p>In the modelling we assume that crypto assets differ by two essential features: security (technological) and stability (governance). Investors make choices over crypto assets similarly to how they make choices by using a recommender app: the app presents each investor with a pair of crypto assets with certain security-stability characteristics to be compared. Each investor submits its preference for adopting one of the two assets to the app. The app, in turn, provides a recommendation on whether the proposed adoption is sensible given the assets' essential features, information about the adoption choices of all other investors, and expected future economic benefits of adoption. Investors continue making their adoption choices over all pairs of crypto assets until their expected future economic benefits can no longer be improved upon. This constitutes an optimal selection decision. We simulate optimal selection decisions considering the behaviour of different types of investors, driven by their attitudes towards assets' features. We find a variety of possible emergent outcomes for the investments in the crypto-ecosystem and the future adoption of the crypto assets.</p>
Model trees and associated simulated nucleotide sequences for testing phylogenetic inference methods
<p>This repository contains 142 tar.gz archive files, each containing nucleotide sequence data that have been simulated using <a href="http://abacus.gene.ucl.ac.uk/software/indelible/"><em>INDELible</em></a> for testing alignment-free phylogenetic inference methods. These datasets were generated by using the results (trees and model parameters) of 142 phylogenomic analyses of real-case data as model (available <a href="https://zenodo.org/record/4034261">here</a>). Initial sequence length was 5 Mbs, and an indel rate of 0.01 was set with indel length drawn from [1, 50000] according to a Zipf distribution with parameter 1.5 (see <em>INDELible</em> <a href="http://abacus.gene.ucl.ac.uk/software/indelible/manual/model.shtml">manual</a>).</p> <p>Each archive contains the following files/directories:</p> <ul> <li><code>GTR.params.trees.tsv </code> a tab-delimited file summarizing the real-case GTR+Γ model parameters and the phylogenetic tree used to simulate the sequence dataset (gathered from <a href="https://zenodo.org/record/4034261">https://zenodo.org/record/4034261</a>)</li> <li><code>tax.tsv </code> a tab-delimited file containing the initial (col 1) and simplified (col 2) taxon names</li> <li><code>model.nwk </code> a <a href="https://evolution.genetics.washington.edu/phylip/newicktree.html">Newick</a>-formatted file containing the initial model tree (gathered from <code>GTR.params.trees.tsv</code>) with simplified leaf names (following <code>tax.tsv</code>)</li> <li><code>control.txt </code> the <em>INDELible</em> input file used to simulate the evolution of a sequence along the tree in <code>model.nwk</code></li> <li><code>seq/ </code> a directory containing the simulated sequences (one FASTA file per leaf in the tree in <code>model.nwk</code>)</li> </ul> <p>___</p> <p>Criscuolo A (2020) <em>On the transformation of MinHash-based uncorrected distances into proper evolutionary distances for phylogenetic inference</em>. F1000Research, 9:1309. <a href="https://doi.org/10.12688/f1000research.26930.1">doi:10.12688/f1000research.26930.1</a></p>
Correlation Analysis and Simulation Modeling of Land use Land Cover change and its Link with Land surface temperature
<p>The uploaded data is related to LULC modeling. Data consist of driving variables and correlation analysis between LST and NDVI in different LULC classes.</p>
Hierarchical Inference With Bayesian Neural Networks: An Application to Strong Gravitational Lensing - Model Weights, Chains, BNN Samples, and Simulated Datasets
<p>The model weights, chains, simulated datasets, and BNN samples used to produce the results shown in LSST DESC Collaboration paper "Hierarchical Inference With Bayesian Neural Networks: An Application to Strong Gravitational Lensing." All files presented here are meant for use in tandem with the python package "ovejero" (<a href="https://github.com/swagnercarena/ovejero">https://github.com/swagnercarena/ovejero</a>).</p>
Contrasting aerosol effects on longwave cloud forcing in South East Asia and Amazon simulated with Community Atmosphere Model version 5.3
<p>Aerosols modify cloud microphysical and radiative properties and thus impact the shortwave (SW) and longwave cloud forcing (LWCF). This study first reports the finding of contrasting aerosol effects on LWCF in South East Asia and Amazon in the Community Atmosphere Model version 5.3 (CAM5.3), which corresponds to the sum of LW indirect and semi-direct effects investigated in Ghan et al., (2012). A series of numerical experiments is conducted to decompose the complex aerosol effects on LWCF. Our analysis indicates that the cooling (negative aerosol effects on LWCF) in Amazon is due mainly to the aerosol effects on warm clouds and the inhibition of vertical motion by the aerosol-induced radiative cooling. In contrast, the warming (positive aerosol effects on LWCF) in South East Asia is due mainly to the aerosol effect on homogeneous freezing, thus reducing the ice particle size and prolonging the existence of ice cloud. Our results emphasize that a comprehensive analysis of integrated aerosol effects on both warm and ice clouds is necessary for better understanding the aerosol effects on LWCF.</p>
Mating under climate change: impact of simulated heatwaves on the reproduction of model pollinators (Dataset)
<ol> <li>Climate change is related to an increase in frequency and intensity of extreme events such as heatwaves. It is well established that such events may worsen the current worldwide biodiversity decline. In many organisms, heat stress is associated with direct physiological perturbations and could lead to a decrease of fitness. In contrast to endotherms, heat stress resistance has been poorly investigated in heterotherms; especially in insects, in which the internal physiological mechanisms available to regulate body temperature are almost negligible making them sensitive to extreme temperature variations.</li> <li>Wild bees are crucial pollinators for wild plants and crops. Among them, bumblebees are experiencing a strong decline across the world. Therefore, the ongoing global decline of these insect pollinators partly due to climate change could cause major economic issues.</li> <li>Here, we assess how simulated heatwaves impact fertility and attractiveness (key parameters of sustainability) of bumblebee males. We used three model species: <i>Bombus terrestris</i>, a widespread and warm-adapted species, <i>B. magnus</i> and <i>B. jonellus</i>, two declining and cold-adapted species.</li> <li>We highlight that heat shock (40°C) negatively affects sperm viability and sperm DNA integrity only in the two cold-adapted species. Heat shock can also impact the structure of cephalic labial glands and the production of pheromones only in the declining species.</li> <li>The specific disruption in key reproductive traits we identify following simulated heatwave conditions could provide one important mechanistic explanation for why some pollinators are in decline through climate change.</li> </ol>
Screencast of Automatic Building of a Repository for Component-based Synthesis of Warehouse Simulation Models
<p>Screencast of the migration of an existing simulation model into a software product line.</p>
Data from: QuLinePlus: extending plant breeding strategy and genetic model simulation to cross-pollinated populations – case studies in forage breeding
Plant breeders are supported by a range of tools that assist them to make decisions about the conduct or design of plant breeding programs. Simulations are a strategic tool that enable the breeder to integrate the multiple components of a breeding program into a number of proposed scenarios that are compared by a range of statistics measuring the efficiency of the proposed systems. A simulation study for the trait growth score compared two major strategies for breeding forage species, among half-sib family selection and among and within half-sib family selection. These scenarios highlighted new features of the QuLine program, now called QuLinePlus, incorporated to enable the software platform to be used to simulate breeding programs for cross pollinated species. Each strategy was compared across three levels of HS family mean heritability (0.1, 0.5 and 0.9), across three sizes of the initial parental population (10, 50, and 100), and across three genetic effects models (fully additive model, a mixture of additive, partial and over dominance model, and a mixture of partial dominance and over dominance model). Among and within half-sib selection performed better than among half-sib selection for all scenarios. The new tools introduced into QuLinePlus should serve to accurately compare among methods and provide direction on how to achieve specific goals in the improvement of plant breeding programs for cross breeding species.
Data from: Measuring population differentiation using GST or D? A simulation study with microsatellite DNA markers under a finite island model and nonequilibrium conditions
Genetic differentiation of populations is a key question in population genetic investigations. Wright's FST (and its relatives such as GST) has been a standard measure of differentiation. However, the deficiencies of these indexes and their significance have been increasing realized in recent years, leading to some new measures being proposed, such as Jost's (2008) D. This has also stimulated some considerable debate which, in certain sense, makes empirical biologists even more confused, for example, on statistics which should be used for estimating population differentiation. Here we report a simulation study with neutral microsatellite DNA loci under a finite island model to compare the performance of GST and D, under non-equilibrium conditions, in particular. Our results suggest that there exist fundamental differences between the two statistics and neither GST nor D operate satisfactorily in all situations for quantifying differentiation. D is very sensitive to mutation models but GST noticeably less so ...
Data from: Phylodynamic model adequacy using posterior predictive simulations
Rapidly evolving pathogens, such as viruses and bacteria, accumulate genetic change at a similar timescale over which their epidemiological processes occur, such that it is possible to make inferences about their infectious spread using phylogenetic time-trees. For this purpose it is necessary to choose a phylodynamic model. However, the resulting inferences are contingent on whether the model adequately describes key features of the data. Model adequacy methods allow formal rejection of a model if it cannot generate the main features of the data. We present TreeModelAdequacy (TMA), a package for the popular BEAST2 software, that allows assessing the adequacy of phylodynamic models. We illustrate its utility by analysing phylogenetic trees from two viral outbreaks of Ebola and H1N1 influenza. The main features of the Ebola data were adequately described by the coalescent exponential-growth model, whereas the H1N1 influenza data was best described by the birth-death SIR model.
Models, Simulations, Measurements, and Analysis for Modeling and Simulating Apache Spark Streaming Applications
<p>Palladio component models, simulations results, measurement data, and R analysis script for the publication: Modeling and Simulating Apache Spark Streaming Applications.</p> <p>Symposium on Software Performance (SSP16)</p>
R scripts for data simulation and model assessment in ShuqingNTeng MEE 2017
<p>R scripts for reproducing results in ShuqingNTeng MEE 2017</p>
ScienceDex guides
Understand access before you commit
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.