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252 results for “variability modeling”
Data base of cycles 1 and 2 of biometric variables of fuzzy model for assessing the development of the radish crop
<p>This data represent the fuzzy model developed of a Rule-Based System (RBS) to evaluation the development of the radish crop in two production cycles, for the irrigation depth at 100% of evapotranspiration. This RBS represents the function <span class="math-tex">\(f:\mathbb{R}\rightarrow\mathbb{R}^{10}\)</span>, where the domain is represented by the Days After Sowing (DAS), and counterdomain is represented by the ten biometric variables, denominated: Number of Leaves (NL), Root Length (RL), Bulb Diameter (BD), Bulb Length (BL), Green Root Weight (GRW), Green Leaf Weight (GLW), Green Bulb Weight (GBW), Dry Root Weight (DRW), Dry Leaf Weight (DLW). </p>
R code and data for "Flake selection and scraper retouch probability: an alternative model for explaining Middle Paleolithic assemblage retouch variability"
<p>R code and data used for "Flake selection and scraper retouch probability: an alternative model for explaining Middle Paleolithic assemblage retouch variability" (Archaeological and Anthropological Sciences, Volume 10, Issue 7, pp 1791–1806)</p>
CMIP6 variable counts per model
<p>The number of variables (y-axis) published for the historical simulation by each model (as represented in the DKRZ Earth System Grid Federation (ESGF) index node March 2022) is shown in blue columns against the model rank, where models are ranked in order of decreasing variable count. Also shown, in orange, is the number of variables which are included by all models up to the given rank.</p> <p>Data provided by Martin Juckes, image created by Beth Dingley</p>
The role of the intraspecific variability of hydraulic traits for modelling the plant water use in different European forest ecosystems: scripts, model output, and parameter files
<p>This repository contains the model outputs and R scripts used to process the data to analyze the impact of the plant hydraulic parameterization of the manuscript: "The role of the intraspecific variability of hydraulic traits for modelling the plant water use in different European forest ecosystems". The following is a detailed description of the content of this repository:</p> <p>model_output.zip: This compressed file contains the results of all the individual numerical experiments per experimental site as produced by the Comunity Land Model version 5. The files are stored in NETCDF format per year. The folder is arranged with subfolders containing the individual results from each experimental site as follows:</p> <ul> <li>rc: model output with the results of the resistant configuration of experiment 1 (RC)</li> <li>vc: model output with the results of the vulnerable configuration of experiment 1 (VC)</li> <li>k_dc: model output with the results of the default configuration used for experiments 1 and 2 (DC or DC<em>k</em><sub>max</sub>)</li> <li>k_rc: model output with the results of the low plant hydraulic conductance (L<em>k</em><sub>max</sub>) for experiment 2</li> <li>k_irc: model output with the results of the intermediate low plant hydraulic conductance (IL<em>k</em><sub>max</sub>) for experiment 2</li> <li>k_vc: model output with the results of the high plant hydraulic conductance (H<em>k</em><sub>max</sub>) for experiment 2</li> <li>k_ivc: model output with the results of the intermediate high plant hydraulic conductance (IH<em>k</em><sub>max</sub>) for experiment 2</li> <li>k_iirc: model output with the results of the additional intermediate low plant hydraulic conductance (IIL<em>k</em><sub>max</sub>) for experiment 2</li> <li>ko_dc: model output with the results of the best <em>k</em><sub>max</sub> and the default configuration of the PVC used in experiment 3</li> <li>ko_rc: model output with the results of the best <em>k</em><sub>max</sub> and the resistant configuration of the PVC used in experiment 3</li> <li>ko_vc: model output with the results of the best <em>k</em><sub>max</sub> and the vulnerable configuration of the PVC used in experiment 3</li> </ul> <p>The scripts were written for use in RStudio, and each contains a detailed description of the data requirements and outputs. Each script was developed to read directly the netcdf files of the model output and the csv files containing the transpiration estimates calculated from the SAPFLUXNET per experimental site (script 1).</p>
Modeling abrupt excursions in water vapor isotopic variability during cold fronts at the Pointe Benedicte observatory in Amsterdam Island / Model dataset
<p>ECHAM6wiso and LMDZ6iso simulations, and python script analyzing model outputs, associated with the article :</p> <ul> <li>Amaelle Landais, Cécile Agosta, Françoise Vimeux, Olivier Magand, Cyrielle Solis, Alexandre Cauquoin, Niels Dutrievoz, Camille Risi, Christophe Leroy Dos Santos, Elise Fourré, Olivier Cattani, Bénédicte Minster, Frédéric Prié, Mathieu Casado, Aurélien Dommergue, Yann Bertrand, and Martin Werner (submitted to <a href="https://www.atmospheric-chemistry-and-physics.net/">Atmospheric Chemistry and Physics</a>, 2023) Modeling abrupt excursions in water vapor isotopic variability during cold fronts at the Pointe Benedicte observatory in Amsterdam Island.</li> </ul> <p>If you use the data or the python script, please cite the last version of this article available on <a href="https://www.egusphere.net/">https://www.egusphere.net/</a> or <a href="https://acp.copernicus.org/">https://acp.copernicus.org/</a>.</p> <p>Please also cite the articles related to the model simulations:</p> <ul> <li> <p>Risi, C., Bony, S., Vimeux, F., and Jouzel, J.: Water-stable isotopes in the LMDZ4 general circulation model: Model evaluation for present-day and past climates and applications to climatic interpretations of tropical isotopic records, Journal of Geophysical Research Atmospheres, 115, https://doi.org/10.1029/2009JD013255, 2010.</p> </li> <li> <p>Cauquoin, A. and Werner, M.: High-Resolution Nudged Isotope Modeling With ECHAM6-Wiso: Impacts of Updated Model Physics and ERA5 Reanalysis Data, Journal of Advances in Modeling Earth Systems, 13, e2021MS002532, https://doi.org/10.1029/2021MS002532, 2021.</p> </li> <li> <p>Cauquoin, A., Werner, M., and Lohmann, G.: Water isotopes -- climate relationships for the mid-Holocene and preindustrial period simulated with an isotope-enabled version of MPI-ESM, Climate of the Past, 15, 1913–1937, https://doi.org/10.5194/cp-15-1913-2019, 2019.</p> </li> </ul>
Short- And Long-Term Micro & Nano Particles Exposure to Estuarine Model Species at Variable Salinities
Micro (< 5mm) & Nano (1-1000 nm) plastic (MNP) particles are ubiquitous in the environment and have been shown to have a variety of effects on aquatic organisms. The effects of MNP exposure can vary depending on the type of MNP, the concentration of MNP, the duration of exposure, and the salinity of the water. This study used 5 plastic types including polyester (PE), polypropylene (PP), polylactic acid (PLA), polyethylene terephthalate (PETE) and tire particles (TP) in two forms, solid plastic particles and microfibers. To assess potential impacts on exposed organisms, early life stages of the estuarine indicator species Inland Silverside (Menidia beryllina) and mysid shrimp (Americamysis bahia) were exposed to three concentrations at micro- and nano-size fractions, and separately to leachate, across a 5-25 PSU salinity gradient. This exposure study was performed in longer term (21 days for Inland Silverside and 28 days for mysid shrimp) and shorter term (4 days for Inland Silverside and 7 days for mysid shrimp). Following MNP exposures of 7d (A. bahia) and 96 h (M. beryllina), behavioral assays were performed post-exposure from each treatment using a Danio Vision Observation Chamber (Noldus, Wageningen, the Netherlands) for the dark: light cycle as described previously (Siddiqui et al., 2022; Siddiqui et al., 2023; Mundy et al., 2021; Segarra et al., 2021). These behavior studies provide important information for risk assessments and policy making that can establish knowledge for MNPs risk.
SWASH Model Files from Modeled Three-Dimensional Currents and Eddies on an Alongshore-Variable Barred Beach
<p>This archive contains SWASH model input, MATLAB processing scripts, and the model output used to produce the figures in “Modeled Three-Dimensional Currents and Eddies on an A longshore-Variable Barred Beach."</p> <p>Support was provided by the Washington Royalty Research Fund, the National Science Foundation, the Office of Naval Research, a National Defense Science and Engineering Graduate Fellowship, a Vannevar Bush Faculty Fellowship, the United States Army Corps of Engineers, the United States Coastal Research Program, Sea Grant, and the WHOI Investment in Science Fund.</p> <p> </p> <p>The model inputs, scripts, and data are contained in three zip files: </p> <ul> <li>model_input.zip: input files for all simulations presented in this paper</li> <li>model_output_processing.zip: MATLAB model output processing scripts.</li> <li>model_data.zip: model output used to produce the figures</li> </ul> <p> </p> <p>SWASH is an open source code and can be download at <a href="http://swash.sourceforge.net/home.htm">http://swash.sourceforge.net/home.htm</a>. Please contact C.M. Baker at cmbaker9@uw.edu with questions. </p>
Dataset for "Topography-based statistical modelling reveals high spatial variability and seasonal emission patches in forest floor methane flux"
<p>This dataset provides measured and upscaled forest floor methane (CH4) fluxes and soil moisture.</p> <p>This dataset is related to the following manuscript:</p> <p>Vainio et al., Topography-based statistical modelling reveals high spatial variability and seasonal emission patches in forest floor methane flux, Biogeosciences, in review. (The discussion preprint is available at https://doi.org/10.5194/bg-2020-263.)</p>
Dataset - Spatio-temporal modeling of the crowding conditions and metabolic variability in microbial communities
<p><strong>Dataset simulated for the manuscript "Spatio-temporal modeling of the crowding conditions and metabolic variability in microbial communities" by Angeles-Martinez and Hatzimanikatis.</strong></p>
Supplemental Figures for: "The SDSS-V Black Hole Mapper Reverberation Mapping Project: Multi-Line Dynamical Modeling of a Highly Variable Active Galactic Nucleus with Decade-long Light Curves"
<p>Additional figures for the paper The SDSS-V Black Hole Mapper Reverberation Mapping Project: Multi-Line Dynamical Modeling of a Highly Variable Active Galactic Nucleus with Decade-long Light Curves. </p> <h2> </h2> <h2>Interactive Figure Data</h2> <p>Data files used to create the intreactive version of Figure 5 in the publication. There is a version of each file for each line species in the plot (i.e., Hα, Hβ, and MgII).</p> <p><strong>clouds_{line_name}.csv</strong>: A CSV file containing the cloud positions, line-of-sight velocities, and weights. The columns of the file are x [light-day], y [light-day], z [light-day], velocity [km/s], and weight.</p> <p><strong>transfer_function_velocity_{line_name}.csv</strong>: A CSV file containing x-axis of the transfer function panels, the rest-frame velocity.</p> <p><strong>transfer_function_tau_{line_name}.csv</strong>: A CSV file containing the y-axis of the transfer function panels, the rest-frame time delay τ in days.</p> <p><strong>transfer_function_{line_name}.csv</strong>: A CSV file containing the transfer function <span lang="el">Ψ.</span></p> <p> </p> <h2>Model-Related Figures</h2> <p><strong>fitplot_low.pdf</strong>: Same as Figure 4 in the publication, but for the low state.</p> <p><strong>fitplot_high.pdf</strong>: Same as Figure 4 in the publication, but for the high state.</p> <p><strong>geoplot_low.pdf</strong>: Same as Figure 5 in the publication, but for the low state.</p> <p><strong>geoplot_high.pdf</strong>: Same as Figure 5 in the publication, but for the high state.</p> <p><strong>lagplot_low.pdf</strong>: Same as Figure 6 in the publication, but for the low state.</p> <p><strong>lagplot_high.pdf</strong>: Same as Figure 6 in the publication, but for the high state. </p> <p> </p> <h2>Spectral Reduction Method Comparison</h2> <p><strong>spec_decomp_pyqsofit.pdf</strong>: A figure showing the spectral decomposition performed in PyQSOFit for the processed line profiles for Hβ, Hα, and MgII for an example epoch. The total spectrum is shown in black, and each of the decomposed elements are shown, color-coded using the legend above the three panels.</p> <p><strong>input_method_comp.pdf</strong>: A figure showing the processed multi-epoch line profiles for each spectral reduction method (PyQSOFit and PrepSpec). Each column corresponds to a given line (labeled above), and each row corresponds to a given spectral reduction method (labeled on the right). Note that the scales for each panel are different.</p> <p> </p> <h2>Published Value Comparison</h2> <p><strong>pubval_table.pdf</strong>: A table comparing the values obtained for certain physically relevant parameters obtained from our BRAINS modeling to those obtained in Shen et al. (2024). </p> <p> </p> <h2>Joint Posterior Analysis</h2> <p><strong>joint_line_posterior_table.pdf</strong>: A table containing the median values (and their uncertainties) extracted from the joint posteriors for a few key model parameters. These joint posteriors are produced for a given state, across all line species. </p> <p> </p> <h2>Virial Factor Analysis</h2> <p><strong>fcomp.pdf</strong>: A comparison of the virial factor values obtained by using the line dispersion (σ) and FWHM of each of the lines in each of the states.</p> <p><strong>fcorr_table.pdf</strong>: A table showing the correlations between the virial factor and model parameters (i.e., the slopes obtained using <a href="https://github.com/jmeyers314/linmix">LinMix</a> assuming a linear relationship, and the correlation coefficients). Values are given for virial factors obtained using both the line dispersion (σ) and FWHM.</p>
The Kconfig Variability Framework as a Feature Model: Sampled Configurations for Manual Evaluation
<p>This dataset contains plain text files with sampled solutions used during the manual evaluation of the transformation rules presented in https://doi.org/10.5445/IR/1000162110. To reproduce the manual evaluation process yourself, please copy over the respective Kconfig files in a local copy of the Linux kernel Git repository and run `make menuconfig`. You need to insert an invisible `MODULES` configuration symbol to ensure that tristate configuration symbols are handled correctly by Kconfig. Additionally, you need to remove the default Linux Kconfig file and rename the Kconfig file for which you want to reproduce the evaluation process accordingly (simply remove the number prefix).</p><p>Configurations marked with KCONFIG_NONSOLUTION cannot be reconstructed in `menuconfig`, wherein configurations marked with KCONFIG_SOLUTION should be reproducable in the `menuconfig` interface.</p><p>We additionally provide the generated feature models for the 9 selected Kconfig files, alongside with the Kconfig files themselves. Kconfig{1,2,3,4,5} can be automatically evaluated with Kfeature, as they contain no tristate confsyms.</p><p>The upstream version of Kfeature can be found on Codeberg: https://codeberg.org/6b6279/Kfeature</p>
Datasets related to the study "Spatial variability and future evolution of surface solar radiation over Northern France and Benelux: a regional climate model approach"
<p>This dataset contains the data of the manuscript "Spatial variability and future evolution of surface solar radiation over Northern France and Benelux: a regional climate model approach" under publication in Atmospheric Chemistry and Physics. <br>It includes CNRM-ALADIN64 simulations of surface solar radiation, cloud fraction, aerosol optical depth and water vapor content. <br>A directory is dedicated to HINDCAST simulations. It includes all datasets involved in the evaluation of CNRM-ALADIN64 simulations, as well as all datasets used for the analysis of the spatial variability of surface solar irradiance over the recent past. <br>Another directory is dedicated to future climate simulations. In this case, several sub directories can be found, representing either the simulations over the historical period (2005-2014, i.e. HIST directory), or simulations at mid (2045-2054, "mid" suffix) and long term (2091-2100, "end" suffix) horizons for SSP1-1.9 and SSP3-7.0. Each set of climate simulations is composed of three members (r1f, r2f, r3f), which were used collectively to increase the statistical significance of our analysis. </p>
Simulated terrestrial biosphere variables across Termination V (iLOVECLIM model)
<p>The following files contain output data from the 32-kyr iLOVECLIM simulation covering Termination V: both sequences start at 436 kyr BP and end at 404 kyr BP with a yearly time step.</p> <ul> <li>Simulated_carbon_stock.nc: the average simulated carbon stock over latitudinal bands for each of the four carbon components (green biomass, structural biomas, slow Soil Organic Matter (SOM) and fat SOM) and the total carbon stock (sum of the four components).</li> <li>Simulated_tree_fraction.nc: the global simulated tree fraction (in %).</li> </ul>
Data and codes related to the article: Renard et al. A Hidden Climate Indices Modeling Framework for Multi-Variable Space-Time Data. Water Resources Research.
<p>This package contains data and codes related to the article:</p> <p>B. Renard, M. Thyer, D. McInerney, D. Kavetski, M. Leonard and S. Westra. A Hidden Climate Indices Modeling Framework for Multi-Variable Space-Time Data. <em>Water Resources Research</em>.</p> <p><strong>R scripts</strong></p> <p>The main computations of the paper have been performed using a computing code named <a href="https://github.com/STooDs-tools">STooDs</a>, which is called using the bash script launchpad.sh.</p> <p>The R scripts in this package only perform pre-processing (create configuration files) and post-processing (analyze results) steps.</p> <ul> <li>Funk.R: a set of functions called by other scripts.</li> <li>1_defineModel.R: define the model to be inferred and create STooDs configuration files in <em>dataset_XXX/runs.</em></li> <li>2_analyzeResults.R: analyze the outputs of STooDs runs.</li> <li>3_crossValidation.R: analyze the outputs of cross-validation experiments in <em>dataset_XV</em> and <em>dataset_XV_1971-1990</em>.</li> </ul> <p><strong>Data</strong></p> <p>Data for the 3 cases (full dataset and 2 cross-validation experiments) are located in folders <em>dataset_XXX/data</em>.</p> <ul> <li>dat.txt: raw dataset in text format.</li> <li>dataset.RData: dataset in RData format.</li> <li>DMI.txt, NINO.txt, SAM.txt: 3 standard climate indices.</li> <li>spaceP.txt, spaceQ.txt, spaceT.txt: properties of Precipitation (P), Streamflow (Q) and Temperature (T) stations.</li> <li>[only for cross-validation experiments] validation.RData: left-out data used for validation.</li> </ul> <p> </p> <p> </p>
BioVAE: a pre-trained latent variable language model for biomedical text mining
<p>We release BioVAE, the first large-scale pre-trained latent variable language model for the biomedical domain, which uses the OPTIMUS framework to train on large volumes of biomedical text.</p> <p>This version contains the pre-trained models for text mining tasks such as named entity recognition or relation extraction, and text generation task.</p> <p>Explanation of each file: (lt32: latent_size = 32, beta05: beta=0.5)</p> <ul> <li>pm-full-lt32-beta00</li> <li>pm-full-lt32-beta05</li> <li>pm-full-lt768-beta00</li> <li>pm-full-lt768-beta05</li> <li>pm-full-generation</li> </ul>
Fortran code used in 'A fractal model for effective excess charge density in variably saturated fractured rocks'
<p>This code is uploaded to support the research study 'A fractal model for effective excess charge density in variably saturated fractured rocks' by L. Guarracino and D. Jougnot (submitted to JGR: Solid Earth, 2021).</p> <p>Files:<br> a) Fortran source code (qvfrac.f) for estimating the effective excess charge density in fractured rocks. The calculation is based on model equations described in the research study.<br> b) Input data (network1.dat) to calculate the effective excess charge density for fracture network 1 described in Section 3 (Figure 5a).</p>
Sensitivity of a Coarse-Resolution Global Ocean Model to a Spatially Variable Neutral Diffusivity - ACCESS-OM2 data and plotting routines
<p>This repository contains the processed data and plotting routines associated with the article</p> <p>Holmes, Groeskamp, Stewart and McDougall (2022), Sensitivity of a Coarse-Resolution Global Ocean Model to a Spatially Variable Neutral Diffusivity, Journal of Advances in Modeling Earth Systems (JAMES), doi: 10.1029/2021MS002914, http://dx.doi.org/10.1029/2021MS002914</p> <p>The contents includes post-processed data output from the 1-degree ACCESS-OM2 ocean-sea-ice model simulations and the python/jupyter plotting routines required to make the plots.</p> <p>The processing script is Holmes2022JAMES_Neutral_Diffusion_ACCESS-OM2_Plotting_Script.ipynb. The data files consist of time-averages or time series of certain metrics processed using NCO tools from the raw ACCESS-OM2 simulation output.</p>
Variability in Antarctic Surface Climatology Across Regional Climate Models and Reanalysis: Datasets
<p>This dataset includes output for snowfall, near-surface air temperature and melt from the following regional climate models (RCMs): Met Office Unified Model version 11.1 (MetUMv11.1), the Modèle Atmosphérique Régional version 3.10 (MARv3.10) and the Regional Atmospheric Climate Model version 2.3p2 (RACMOv2.3p2). The data is aggregated to monthly timesteps from initial 3/6hourly data. The code for aggregation is available here: https://github.com/Jez-Carter/Antarctica_Climate_Variability . Data goes from ~1971-2018 and includes two simulations from each RCM: 0.11° (12.25 km) and 0.44° (49 km) resolution simulations from the MetUM; ERA-Interim and ERA5 driven simulations from MAR and RACMO. The data used in the results for 'Variability in Antarctic Surface Climatology Across Regional Climate Models and Reanalysis Datasets' J.Carter et al, is included here and can be generated using the code available here: https://github.com/Jez-Carter/Antarctica_Climate_Variability . </p> <p><strong>Data usage notice:</strong><br> If you use any of these results, please acknowledge the work of the people involved in producing them. Acknowledgements should have language similar to the below.</p> <p>"We thank C. Kittel and the MAR team which make available the model outputs, as well agencies (F.R.S - FNRS, CÉCI, and the Walloon Region) that provided computational resources for MAR simulations."</p> <p>In order to document MAR scientific impact and enable ongoing support of the model, users are encouraged to contact C. Kittel to add their works in the list of MAR-related publications.</p> <p>If you need other variables or output frequencies over Antarctica from: MAR, contact C.Kittel (c2kittel@gmail.com); RACMO, contact J.M. van Wessem; MetUM, contact A.Orr. </p>
Fig. 5. The marginal response curve for the explanatory variable Bio14 in Modelling The Bioclimatic Niche And Distribution Of The Steppe Mouse, Mus Spicilegus (Rodentia, Muridae), In Ukraine
Fig. 5. The marginal response curve for the explanatory variable Bio14 (Precipitation of driest week). (HS — habitat suitability).
Fig. 4. The marginal response curve for the explanatory variable Bio09 in Modelling The Bioclimatic Niche And Distribution Of The Steppe Mouse, Mus Spicilegus (Rodentia, Muridae), In Ukraine
Fig. 4. The marginal response curve for the explanatory variable Bio09 (Mean temperature of driest quarter). (HS — habitat suitability).
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.