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2,152 results for “outputs”
Model output for five Hmsc models of alpine grassland communities
<p>Model output from five joint species distribution models made with Hmsc in R. One 'global' model with all data, and one model for each of four sites Skjellingahaugen, Gudmedalen, Låvisdalen, and Ulvehaugen.<br> <br> Omegas are species co-occurrence estimates.</p> <p>Models defined by EL, OO, data formatted by EL, model fit by OO.</p> <p>Scripts for model fitting and presenting output are not published here but follow the generic Hmsc pipeline as published in Ovaskainen & Abrego (2020). Joint Species Distribution Modelling With Applications in R. Cambridge university press. DOI: <a href="https://doi.org/10.1017/9781108591720">https://doi.org/10.1017/9781108591720</a></p> <p> </p>
DeepRainForest Output Data : Simulated daily rainfall output (2001-2020) under observed tree cover and no deforestation scenarios in South America
<p>This dataset deposited contains simulation data related to the analysis of forest-rainfall relationships and the impact of historical deforestation on rainfall patterns in South America. The data includes outputs from a spatiotemporal neural network model, DeepRainForest, developed to simulate rainfall based on vegetation and climate inputs in South America. This dataset is the data necessary to recreate the figures that appear in an accepted (but yet to be published manuscript) in Global Change Biology titled "Assessing the impact of past and ongoing deforestation on rainfall patterns in South America". When the manuscript is accepted then the article will be linked from here.</p> <p><strong><em>DeepRainForest_daily_rainfall_with_observed_treecover.nc:</em></strong> contains simulated daily rainfall data spanning from 2001 to 2020, considering the observed tree cover. </p> <p><em><strong>DeepRainForest_daily_rainfall_with_2000_treecover.nc: </strong></em>contains simulated daily rainfall output for the same time period (2001-2020) but assumes no deforestation from 2000 onwards. </p> <p><em><strong>DeepRainForest_daily_rainfall_with_1982_treecover.nc:</strong></em>contains simulated daily rainfall output for the same time period (2001-2020) but assumes no deforestation from 1982 onwards.</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>
Model output from CAABA/MECCA study "Development of a multiphase chemical mechanism to improve secondary organic aerosol formation in CAABA/MECCA (version 4.7.0)"
<p>This dataset includes the main data obtained during the study "Development of a multiphase chemical mechanism to improve secondary organic aerosol formation in CAABA/MECCA (version 4.7.0)" (DOI:10.5194/gmd-2023-102). The updated model code can be found at zenodo.org (DOI:10.5281/zenodo.7944174). The data can be used to replicate the results shown in the manuscript. Contained are results produced by the updated CAABA/MECCA (version 4.7.0) and reference data from CAABA/MECCA version 4.5.5. In version 4.7.0, new biogenic and anthropogenic species are introduced to the model (limonene and long-chained alkanes) with refined multiphase chemistry, while new reaction pathways are added for existing compounds (isoprene, benzene and IEPOX). The output is generated to evaluate model results in terms of temperature- and NOx-dependency.</p>
Common factor GWAS and TWAS output for nociplastic type pain
<p>file: GSEM_commonFactorGWAS_COPC_6trait_30MAY2023.csv.gz</p> <p>description: Common factor GWAS output for GenomicSEM analyses of 6 COPC traits (see doi: https://doi.org/10.1101/2023.06.27.23291959)</p> <p>columns:</p> <p>SNP = rsID SNP identifier </p> <p>CHR = chromosome</p> <p>BP = base pair position</p> <p>MAF = minor allele frequency</p> <p>A1 = effect allele</p> <p>A2 = other allele</p> <p>i = index (1 - n SNPs)</p> <p>lhs = left hand side of equation </p> <p>op = equation operator (lavaan syntax)</p> <p>rhs = right hand side of equation</p> <p>est = effect size (beta)</p> <p>se_c = standard error of effect estimate</p> <p>Z_Estimate = Z value</p> <p>Pval_Estimate = p value of effect</p> <p>Q = Q (heterogeneity) value</p> <p>Q_df = degrees of freedom for Q</p> <p>Q_pval = Q p value</p> <p>fail = GSEM fail message if applicable</p> <p>warning = GSEM warning message if applicable </p> <p>Z_smooth = smoothing parameter if applicable </p> <p>N_estimate = N estimate </p> <p> </p> <p>file: GSEM_commonFactorTWAS_COPC_6trait_30MAY2023.csv.gz</p> <p>description: Common factor TWAS output for GenomicSEM analyses of 6 COPC traits (see doi: https://doi.org/10.1101/2023.06.27.23291959)</p> <p>columns:</p> <p>Gene = ensembl gene ID </p> <p>Panel = which model (tissue+gene) i.e. reference weights file</p> <p>HSQ = gene heritability </p> <p>i = index (1 - n gene-tissue models)</p> <p>lhs = equation left hand side</p> <p>op = operator (lavaan syntax)</p> <p>rhs = equation right hand side</p> <p>est = association estimate (beta)</p> <p>se_c = standard error of beta</p> <p>Z_Estimate = Z value </p> <p>Pval_Estimate = p value of association test</p> <p>Q = Q (heterogeneity) value</p> <p>Q_df = degrees of freedom for Q</p> <p>Q_pval = p value for Q</p> <p>fail = GSEM fail message if applicable </p> <p>warning = GSEM warning message if applicable </p> <p>tissue = tissue</p> <p>p_bonf_tissue = adjusted p value - bonferroni adjustment within tissue </p> <p>p_fdr_tissue = adjusted p value - false discovery rate adjustment within tissue</p> <p>threshold_bonf_tissue = p value threshold for bonferroni adjustment within tissue </p> <p>p_bonf_experiment = adjusted p value - bonferroni adjustment experiment-wide</p> <p>p_threshold_bonf_experiment = p value threshold (bonferroni, experiment-wide)</p> <p>Q_bonf_tissue = adjusted p value for Q, bonferroni within-tissue </p> <p> </p>
Simulation output for seven simulations with CLM-FATES in the Land Sites Platform
<p>Supporting data for a manuscript involving simulation of vegetation with the<a href="https://www.cesm.ucar.edu/models/clm"> Community Land Model </a>and<a href="https://github.com/NGEET/fates"> FATES</a>. Simulations were run using the <a href="https://noresmhub.github.io/noresm-land-sites-platform/">Land Sites Platform </a>on two virtual linux machines provided by <a href="https://nrec.no/">NREC</a>. The manuscript is part of my (EL) PhD thesis. <br> <br> See the associated GitHub repository for notebooks and workflow documentation, and the thesis chapter or manuscript for further information.</p> <p>In this dataset:</p> <ul> <li>Concatenated model history files for the entire simulation period (e.g. "alp4-1500-cosmo-IA.0-1500.nc")</li> <li>Readme files per simulation specifying the variables passed to the Land Sites Platform to start the simulation (e.g. "readme.md")</li> <li>Zipped case folders, containing the standard CLM case folder structure. Individual monthly history files are found under /archive/lnd/hist. E.g. "2985cbd23a2e3d7b1ac057abd862abb7_alp4-1500-cosmo-ia.zip"</li> </ul>
Input and output data (images + boulder labels, model setup, model weights and more) for the manuscript "Automatic characterization of boulders on planetary surfaces from high-resolution satellite images"
<p><strong>File 1:</strong> raw_data_BOULDERING.zip</p> <p><strong>Size:</strong> 8.8 GB</p> <p><strong>Summary: </strong>It contains all of the rasters (planetary images) and labeled boulders (raw data):</p> <ul> <li> <p>a boulder-mapping file, which is the manually digitized outline of boulders.</p> </li> <li> <p>a ROM file (stands for Region of Mapping), which depicts the image patches on which the boulder mapping has been conducted.</p> </li> <li> <p>a global-tiles file, which shows all of the image patches within a raster.</p> </li> </ul> <p>There are multiple locations/images per planetary body.</p> <p><strong>Structure:</strong></p> <pre>. └── raw_data/ ├── earth/ │ └── image_name/ │ ├── shp/ │ │ ├── <image_name>-ROM.shp │ │ ├── <image_name>-boulder-mapping.shp │ │ └── <image_name>-global-tiles.shp │ └── raster/ │ └── <image_name>.tif ├── mars/ │ └── image_name/ │ ├── shp/ │ │ ├── <image_name>-ROM.shp │ │ ├── <image_name>-boulder-mapping.shp │ │ └── <image_name>-global-tiles.shp │ └── raster/ │ └── <image_name>.tif └── moon/ └── image_name/ ├── shp/ │ ├── <image_name>-ROM.shp │ ├── <image_name>-boulder-mapping.shp │ └── <image_name>-global-tiles.shp └── raster/ └── <image_name>.tif</pre> <p> </p> <p><strong>File 2:</strong> best_model.zip</p> <p><strong>Size:</strong> 624.7 MB</p> <p><strong>Summary:</strong></p> <p>This zip file contains all of the inputs and outputs required/obtained from the training of the BoulderNet Mask R-CNN model (model setup, augmentation pipeline, model weights, log during training, logged metrics):</p> <ul> <li> <p>augmentation_pipeline.json (required as inputs for the training of the algorithm to apply augmentations). See <a href="https://github.com/astroNils">https://github.com/astroNils</a> and the MLtools repository for more information.</p> </li> </ul> <ul> <li> <p>Base-RCNN-FPN.yaml (base model setup file).</p> </li> <li> <p>config.yaml (complete model setup file, merge of the base and Mars-Moon-Earth setup file).</p> </li> <li> <p>Mars-MoonEarth-v050...yaml (model setup file).</p> </li> <li> <p>log.txt (log during training of the algorithm).</p> </li> <li> <p>model_0055999.pth (model weights at second last saving step)</p> </li> <li> <p>model_0063999.pth (model weights at last saving step)</p> </li> </ul> <p>We advice the use of model weights model_0055999.pth (to avoid slight overfitting).</p> <p><strong>File 3:</strong> Apr2023-Mars-Moon-Earth-mask-5px.zip (pre-processed input images)</p> <p><strong>Size:</strong> 252.8 MB</p> <p><strong>Summary:</strong></p> <p>This zip files contains the input data (images and boulder outlines) for the train, validation and test datasets. See <a href="https://github.com/astroNils">https://github.com/astroNils</a> and the MLtools repository for more information in how-to-use the different files.</p> <ul> <li> <p>The json folder contains json files that can be given as input (as a custom dataset) to the Detectron2 platform. The only differences between the two files is how the bounding boxes around masks have been generated. We advised to use "Apr2023-Mars-Moon-Earth-mask-5px.json".</p> </li> <li> <p>The pkl folder and pickle file includes some informations about the 950 image patches in our boulder dataset.</p> </li> <li> <p>The pre-processing folder contains all of the training, validation and test image patches and corresponding shapefiles.</p> </li> <li> <p>The shapefile folder is actually empty (it should not be there!).</p> </li> </ul> <p><strong>Structure:</strong></p> <pre>. └── preprocessed_inputs/ ├── json ├── pkl ├── preprocessing/ │ ├── train/ │ │ ├── images │ │ └── labels │ ├── validation/ │ │ ├── images │ │ └── labels │ └── test/ │ ├── images │ └── labels └── shp</pre> <p> </p>
The coupled ice sheet-Earth system model Bern3D v3.0: Model output
<p>This dataset contains model output of climate and ice sheet variables for the simulations performed in the study:</p> <p>Pöppelmeier, F., Joos, F., Stocker, T. F. (2023). The coupled ice sheet-Earth system model Bern3D v3.0. Journal of Climate.</p> <p>2D and 3D output variables are available for the preindustrial (PI) and Last Glacial Maximum (LGM) control simulations. Timeseries output is provided for CO<sub>2</sub> experiments for which CO<sub>2</sub> concentrations were increased to 2 and 4 times PI concentrations with rates of 0.5, 1, and 2% per year. Timeseries output is also provided for the simulation of the entire last glacial cycle in the standard setup and with logarithmically scaled dust for the aerosol radiative forcing. More details are provided in the above mentioned manuscript.</p>
Model outputs for the study "Guidance in Radiology Report Summarization: An Empirical Evaluation and Error Analysis"
<p>This resources provides pre-processed input data, model checkpoints and model outputs for experiments on the OpenI dataset in below study. </p> <blockquote> <p>Jan Trienes, Paul Youssef, Jörg Schlötterer, and Christin Seifert. 2023. <a href="https://arxiv.org/abs/2307.12803">Guidance in Radiology Report Summarization: An Empirical Evaluation and Error Analysis</a>. In Proceedings of the 16th International Natural Language Generation Conference (INLG), Prague, Czech Republic. Association for Computational Linguistics.</p> </blockquote> <p>For more information please refer to the accompanying paper and code repository (<a href="https://github.com/jantrienes/inlg2023-radsum">https://github.com/jantrienes/inlg2023-radsum</a>).</p> <p><strong>The data is structured as follows:</strong></p> <ul> <li><code>data/preprocessed/</code> includes the dataset(s) for each model</li> <li><code>output/</code> includes one folder for each experiment/model run. The first part of each output path indicates the dataset that was used at inference.</li> <li>For a mapping between model IDs and results in the paper, see below table. All models were also trained <em>with the background section as input. </em>These are available in directories with the <code>-bg-</code> qualifier. </li> </ul> <table> <thead> <tr> <th>Model name in paper</th> <th>Output directory</th> </tr> </thead> <tbody> <tr> <td><em>Results from Table 2</em></td> </tr> <tr> <td>OracleExt</td> <td>openi-unguided/oracle</td> </tr> <tr> <td>BertExt (Liu and Lapata, 2019)</td> <td>openi-unguided/bertext-default</td> </tr> <tr> <td>BertAbs (Liu and Lapata, 2019)</td> <td>openi-unguided/bertabs-default</td> </tr> <tr> <td>GSum (Dou et al., 2021)</td> <td>openi-bertext-default-clip-k1/gsum-default</td> </tr> <tr> <td>GSum w/ LR-Approx</td> <td>openi-bertext-default-clip-lrapprox/gsum-default</td> </tr> <tr> <td>GSum w/ BERT-Approx</td> <td>openi-bertext-default-clip-bertapprox/gsum-default</td> </tr> <tr> <td>GSum w/ Thresholding</td> <td>openi-bertext-default-clip-threshold/gsum-default</td> </tr> <tr> <td>WGSum (Hu et al., 2021)</td> <td>openi-wgsum/wgsum-default</td> </tr> <tr> <td>WGSum+CL (Hu et al., 2022)</td> <td>openi-wgsum-cl/wgsum-cl-default</td> </tr> <tr> <td><em>Results from Table 3</em></td> </tr> <tr> <td>Fixed (k=1)</td> <td>openi-unguided/bertext-default-clip-k1</td> </tr> <tr> <td>LR-Approx</td> <td>openi-unguided/bertext-default-clip-lrapprox</td> </tr> <tr> <td>BERT-Approx</td> <td>openi-unguided/bertext-default-clip-bertapprox</td> </tr> <tr> <td>Thresholding</td> <td>openi-unguided/bertext-default-clip-threshold</td> </tr> <tr> <td>k = |OracleExt|</td> <td>openi-unguided/bertext-default-clip-oracle</td> </tr> <tr> <td><em>Results from Table 4</em></td> </tr> <tr> <td>Fixed (Dou et al., 2021)</td> <td>openi-bertext-default-clip-k1/gsum-default</td> </tr> <tr> <td>Oracle Length</td> <td>openi-bertext-default-clip-oracle/gsum-default</td> </tr> <tr> <td>Oracle Length + Content</td> <td>openi-oracle/gsum-default</td> </tr> <tr> <td><em>Results from Table 5</em></td> </tr> <tr> <td>BertExt w/ k=[1,5]</td> <td>openi-unguided/bertext-default-clip-k{1,2,3,4,5}</td> </tr> <tr> <td>GSum w/ k=[1,5]</td> <td>openi-bertext-default-clip-k{1,2,3,4,5}/gsum-default</td> </tr> </tbody> </table>
nextGEMS: Output of the WP6 ocean vertical mixing sensitivity runs (timeseries)
<p>In work package 6 of the nextGEMS project, several ocean-only model runs were performed with FESOM (Version 2.0) and ICON-O (Version 2.6.6), to test the sensitivity of the upper tropical Atlantic to different settings of the vertical mixing scheme. Two different mixing schemes were tested: TKE and KPP. For TKE, we tested different settings of the c_k parameter (0.1, 0.2 and 0.3), and for KPP different settings of the critical bulk Richardson number (0.3 and 0.27). These runs were done with both ICON-O and FESOM, to enable a comparison of the effects of the vertical mixing settings across different models. From ICON-O only, there are some additional TKE runs available, where we increased the interior ocean background mixing, and switched on the Langmuir turbulence parameterisation. There is also an ICON-O run which uses the FESOM default forcing bulk formulae, to check how much of the differences between the models originates from their different default bulk formulae.<br> <br> All model runs are ocean only, forced with hourly ERA5 reanalysis data. The horizontal resolution is 10km (for FESOM, the extratropical regions have a coarser grid).</p> <p>Here we provide high-frequency (3 hourly) time series of the model output, at selected locations in the tropical Atlantic where observational data are available for comparison in the simulated time range (2014 and 2015). We provide the following locations here:</p> <ul> <li>0N, 10W</li> <li>0N, 23W</li> <li>11.5N, 23W</li> <li>15N, 38W</li> <li>11N, 21.2W</li> <li>17.6N, 24.3W</li> </ul>
Bern3D model output data from idealized co2 increase-decrease simulations to investigate reversibility in the Earth system
<p>The data described below is output from the Bern3D intermediate complexity model and idealized CO2 increase-decrease simulations to investigate reversibilty and hysteresis for different maximum co2 forcings.</p> <p><br> The data are provided as .csv and .nc files<br> The first row in the .csv files contains the header, which describes the variable. The naming convention is as follows:</p> <p>c#k#_VARIABLE</p> <p>c# indicates the maximum co2 as times pre-industrial (c2 to c5)<br> k# indicates the equilibrium climate sensitivity of the respective simulation in degrees C (k2 to k5)<br> and VARIABLE indicates the value of the respective variable, which are:<br> co2: change in atmospheric co2 concentration in [ppm]<br> amoc: change in maximum of the Atlantic meridional overturning circulation in [Sv]<br> ohc: change in ocean heat content in [10^24 J]<br> seaice: sea-ice area remaining as fraction of the pre-industrial cover<br> Om_arag: fraction of water with Omega_arag > 3 in the upper 175 m<br> o2_thermo: change in thermocline (200-600 m) oxygen concentration in [mmol m^-3]<br> for each variable a separate file exists where the variable and co2 are provided.</p> <p><br> Spatial data to create the maps of hysteresis on a grid-cell basis are provided for the two scenarios as .nc files. The naming is as follows:</p> <p>c#k#_hyst_o2thermo.nc</p> <p>where c# corresponds again to maximum co2 as times pre-industrial and k# to the equilibrium climate sensitivity. The .nc files contain the coordinate (latitude, longitude) centers (lat_t, lon_t) and edges (lat_u, lon_u) as well as the hysteresis area (hystA_o2thermo) in [mmol m^-3].</p> <p><br> The files can be readily importet in python, for example, by:<br> import pandas as pd<br> import xarray as xr<br> <br> # for the .csv files<br> df = pd.read_csv('path+filename', sep=',', header=0, index_col=None)<br> <br> # for the .nc files<br> ds = xr.open_dataset('path+filename')</p> <p><br> For additional information or in case of questions please contact:<br> Aurich Jeltsch-Thömmes<br> aurich.jeltsch-thoemmes@unibe.ch</p>
Bern3D model output related to: Hysteresis of the Earth system under positive and negative CO2 emissions
<p>The data below is output from the Bern3D intermediate complexity model and idealized CO2 increase-decrease simulations used in Jeltsch-Thömmes et al., Environ. Res. Lett. 15 (2020) 124026, https://doi.org/10.1088/1748-9326/abc4af</p> <p><br> The data are provided as .csv and .nc files<br> There are different types of data</p> <p><br> 1) TIMESERIES DATA (Fig. 1 and 2)<br> =================================<br> The name of the files indicates the variable:<br> co2_ts.csv change in atm. co2 [ppm]<br> cumulativeEmissions_ts.csv cumulative emissions [GtC]<br> cumulativeAOflux_ts.csv cumulative atm-ocean C flux [GtC]<br> cumulativeABflux_ts.csv cumulative atm-land C flux [GtC]<br> sat_ts.csv change in surface air temperature [degC]<br> ohc_ts.csv change in ocean heat content [10^24 J]<br> amoc_ts.csv change in Atlantic meridional overturning circulation strength [Sv]<br> seaice_ts.csv fraction of pre-industrial sea-ice area remaining [fraction of PI]<br> <br> The first row in the .csv files contains the header, which indicates the experiment. The naming convention is as follows:<br> c4k#_###</p> <p>c4 indicates the maximum co2 as times pre-industrial (4 times)<br> k# indicates the equilibrium climate sensitivity of the respective simulation in degrees C (k2 to k5)<br> ### indicates the rate of CDR:<br> 010: 0.1% yr^-1<br> 010: 0.3% yr^-1<br> 010: 0.5% yr^-1<br> 010: 0.7% yr^-1<br> 100: 1% yr^-1<br> 200: 2% yr^-1<br> 400: 4% yr^-1<br> 600: 6% yr^-1</p> <p><br> 2) HYSTERESIS DATA (Fig. 3)<br> ===========================<br> The name of the files indicates the variables:<br> cumulativeEmissions_sat.csv cumulative emissions and change in surface air temperature [degC]<br> cumulativeEmissions_OHCsurf.csv cumulative emissions and change in upper ocean heat content (0-700 m) [10^24 J]<br> cumulativeEmissions_o2thermo.csv cumulative emissions and change in thermocline (200-600 m) o2 [mmol m^-3]<br> cumulativeEmissions_OM_arag.csv cumulative emissions and fraction of water in the uppermost 175 m with omegar_aragonite saturation state >3 [fraction]</p> <p>each file contains the time (simulation year) as well as cumulative emissions (cumuEmis) and the respective variable (same naming as in filename) for all the experiments (see timeseries data for naming convention)</p> <p><br> 3) SPATIAL DATA (Fig. 4 and 5)<br> ==============================<br> All data for Fig. 4 and 5 are contained in one single .nc file (fig4_5_data.nc) with a varibale for each map shown in Fig. 4 and 5:<br> c4k2_100_sat hysteresis (down-path minus up-path) in surface air temperature at cumulative emissions of 1000 GtC, ECS=2 degC, in [degC]<br> c4k3_100_sat hysteresis (down-path minus up-path) in surface air temperature at cumulative emissions of 1000 GtC, ECS=3 degC, in [degC]<br> c4k5_100_sat hysteresis (down-path minus up-path) in surface air temperature at cumulative emissions of 1000 GtC, ECS=5 degC, in [degC]<br> <br> c4k2_100_o2thermo hysteresis (down-path minus up-path) in thermocline (200-600 m) o2 at cumulative emissions of 1000 GtC, ECS=2 degC, in [mmol m^-3]<br> c4k3_100_o2thermo hysteresis (down-path minus up-path) in thermocline (200-600 m) o2 at cumulative emissions of 1000 GtC, ECS=3 degC, in [mmol m^-3]<br> c4k5_100_o2thermo hysteresis (down-path minus up-path) in thermocline (200-600 m) o2 at cumulative emissions of 1000 GtC, ECS=5 degC, in [mmol m^-3]<br> <br> c4k3_100_Om_arag_up mean aragonite saturation state of the uppermost 175 m at cumulative emissions of 1000 GtC on the up-path, ECS=3 degC, [unitless]<br> c4k3_100_Om_arag_do mean aragonite saturation state of the uppermost 175 m at cumulative emissions of 1000 GtC on the down-path, ECS=3 degC, [unitless]</p> <p> </p> <p> </p> <p><br> The files can be readily importet in python, for example, by:<br> import pandas as pd<br> import xarray as xr<br> <br> # for the .csv files<br> df = pd.read_csv('path+filename', sep=',', header=0, index_col=None)<br> <br> # for the .nc files<br> ds = xr.open_dataset('path+filename')</p> <p><br> For additional information or in case of questions please contact:<br> Aurich Jeltsch-Thömmes<br> aurich.jeltsch-thoemmes@unibe.ch</p>
Outputs of the Jupyter Notebook - Learning the Underlying Physics of a Simulation Model of the Ocean's Temperature (CIRC23)
<p>The dataset contains the outputs of the notebook "Learning the Underlying Physics of a Simulation Model of the Ocean's Temperature (CIRC23)" published in The Environmental Data Science Book.</p>
Output tomographic models for "The attenuation and scattering signature of fluids and tectonic interactions in Central-Southern Apennine."
<p>Output ASCII file for the seismic attenuation tomography in Central-Southern Apennines. The output format is the one from MuRAT software (De Siena et al., 2014). Q and Peak-Delay models in 1.5 Hz, 3 Hz and 6 Hz frequencies are reported as specificated by the files name. The output points of a grid with coordinates available in WGS84 degrees ("Degrees" suffix) or already projected in kilometric UTM coordinates ("UTM" suffix).</p> <p>All other information can be found in the main and supplementary text.</p>
The role of down-slope water and nutrient fluxes in the response of Arctic hill slopes to climate change, output from MBLGEMIII for typical tussock-tundra hill slope near Toolik Field Station, Alaska.
Output data sets of the MBL-GEM III model for a typical tussock-tundra hill slope. The model is described in two papers: Le Dizès, S., Kwiatkowski B.L., Rastetter E.B., Hope A., Hobbie J.E., Stow D., Daeschner S., 2003 Modelling biogeochemical responses of tundra ecosystems to temporal and spatial variations in climate in the Kuparuk River Basin (Alaska), Journal of Geophysical Research Vol. 108 No. D2 10.1029/2001JD000960. Rastetter, E.B., B. L. Kwiatkowski, S. Le Dizès, and J.E. Hobbie. 2004. The Role of Down-Slope Water and Nutrient Fluxes in the Response of Arctic Hill Slopes to Climate Change. Biogeochemistry 69:37-62.
Model output, drivers and parameters for Ecosystem Recovery from Disturbance is Constrained by N Cycle Openness, Vegetation-Soil N Distribution, Form of N Losses, and the Balance Between Vegetation and Soil-Microbial Processes
Files used to generate the data for figures in: Rastetter, EB, Kling, GW, Shaver, GR, Crump, BC, Gough, L. Ecosystem Recovery from Disturbance Is Constrained by N Cycle Openness, Vegetation-Soil N Distribution, Form of N Losses, and the Balance between Vegetation and Soil-Microbial Processes. Ecosystems (2020). https://doi.org/10.1007/s10021-020-00542-3. This paper present a framework for assessing biogeochemical recovery of terrestrial ecosystems from disturbance. We identify three recovery phases. In Phase 1, nitrogen is redistributed from soil organic matter to vegetation, but the ecosystem continues to lose nitrogen because the recovering vegetation cannot take up nitrogen as fast as it is released from soil. In Phase 2, the ecosystem begins re-accumulating nitrogen and converges on a quasi-steady state in which vegetation and soil-microbial processes are in balance. In Phase 3, vegetation and soil-microbial processes remain in balance and the ecosystem slowly re-accumulates the remaining nitrogen.
Experiment output data from a seamless sea ice prediction system based on AWI-CM 1.1
<p>The data provide experiment output of the seamless sea ice prediction system based on AWI-CM 1.1.</p> <p>Exp_C_T_SIT_2007-2012.nc is the monthly sea ice thickness analysis averaged over from 2007 to 2012 for Exp_C_T.</p> <p>Exp_twin_SIC_SIT.tar.bz is the sea ice concentration and sea ice thickness analysis for Exp_twin.</p> <p>Exp_CTD_T_atm_T2m_n63grid.nc is the averaged 2m atmosphere temperature from 2007-2018 on N63 grid for Exp_CTD_T.<br> Exp_CTD_T_atm_u10_n63grid.nc is the averaged 10m wind velocity (u-component) from 2007-2018 on N63 grid for Exp_CTD_T.<br> Exp_CTD_T_atm_v10_n63grid.nc is the averaged 10m wind velocity (v-component) from 2007-2018 on N63 grid for Exp_CTD_T.<br> Exp_CTD_T_SALT_2007-2018_monmean.nc is the averaged ocean salinity from 2007-2018 for Exp_CTD_T. </p> <p>Exp_CTD_T_TEMP_2007-2018_monmean.nc is the averaged ocean temperature from 2007-2018 for Exp_CTD_T.<br> Exp_CTD_T_SIC_SIT_SIV.tar.bz is the analysis of sea ice concentration, sea ice thickness, and sea ice drift from 2007-2018 for Exp_CTD_T.<br> Exp_CTD_T_SIV_INC.nc is the sea ice drift increment from 2007-2018 for Exp_CTD_T.<br> Exp_CTD_T_TEMP_FCST_2007-2018_monmean.nc is the monthly mean ocean temperature forecast averaged over 2007-2018 for Exp_CTD_T.<br> Exp_CTD_T_UEL_2014-2018_mean.nc is the mean oceanic velocity (u-component) averaged over 2014-2018 for Exp_CTD_T.<br> Exp_CTD_T_VEL_2014-2018_mean.nc is the mean oceanic velocity (v-component) averaged over 2014-2018 for Exp_CTD_T.</p> <p><br> Exp_CTRL_atm_T2m_n63grid.nc is the averaged 2m atmosphere temperature from 2007-2018 on N63 grid for Exp_CTRL.<br> Exp_CTRL_atm_u10_n63grid.nc is the averaged 10m wind velocity (u-component) from 2007-2018 on N63 grid for Exp_CTRL.<br> Exp_CTRL_atm_v10_n63grid.nc is the averaged 10m wind velocity (v-component) from 2007-2018 on N63 grid for Exp_CTRL.<br> Exp_CTRL_SALT_2007-2018_monmean.nc is the averaged ocean salinity from 2007-2018 for Exp_CTRL. <br> Exp_CTRL_SIC_SIT.tar.bz is the sea ice concentration and sea ice thickness simulation from 1997-2018 for Exp_CTRL.<br> Exp_CTRL_SIV.tar.bz is sea ice drift simulation from 1997-2018 for Exp_CTRL.<br> Exp_CTRL_TEMP_2007-2018_monmean.nc is the averaged ocean temperature from 2007-2018 for Exp_CTRL. <br> Exp_CTRL_UEL_2014-2018_mean.nc is the averaged oceanic velocity (u-component) from 2014-2018 for Exp_CTRL. <br> Exp_CTRL_VEL_2014-2018_mean.nc is the averaged oceanic velocity (v-component) from 2014-2018 for Exp_CTRL. </p> <p>fesom.initial.mesh.diag.nc contains the area and volume of the CORE-II mesh.<br> mesh_core2.tar.bz contains the detailed CORE-II mesh information.<br> </p>
Output data for manuscript "Tidal analysis of GNSS reflectometry applied for coastal sea level sensing in Antarctica and Greenland"
<p>We retrieve sea levels in polar regions via GNSS reflectometry (GNSS-R), using signal-to-noise ratio (SNR) observations from eight POLENET GNSS stations. Although geodetic-quality antennas are designed to boost the direct reception from GNSS satellites and to suppress indirect reflections from natural surfaces, the latter can still be used to estimate the sea level in a stable terrestrial reference frame. Here, typical GNSS-R retrieval methodology is improved in two ways, 1) constraining phase-shifts to yield more precise reflector heights and 2) employing an extended dynamic filter to account for the second-order height rate of change (vertical acceleration). We validate retrievals over a 4-year period at Palmer Station (Antarctica), where there is a co-located tide gauge (TG). Because ice contaminates the long-period tidal constituents, we focus on the main tidal species (daily and subdaily), by employing a deseasonalization filter. The difference between sub-hourly GNSS-R retrievals of the ocean surface and TG records has a root-mean-square error (RMSE) of 15.4 cm and a correlation of 0.903, while the tidal prediction has a RMSE of 1.9 cm and a correlation of 0.998. There is excellent millimetric agreement between the two sensors for most eight major tidal constituents, with the exception of luni-solar diurnal (<em>K<sub>1</sub></em>), principal solar (<em>S<sub>2</sub></em>), and luni-solar semidiurnal (<em>K</em><sub>2</sub>) components, which are biased in GNSS-R due to the leakage of the GPS orbital period. We also compare the GNSS-R tidal constituents from seven additional POLENET sites, without co-located TG, to global and local ocean tide models. We find that the root-sum-square-error (RSSE) of eight major constituents varies between 26.0 cm and 56.9 cm for different models. Given that the agreement in tidal constituents between the TG and GNSS-R was better at Palmer Station, we conclude that assimilating the GNSS-R retrievals into tidal models would improve their accuracy in Antarctica and Greenland, provided that care is exercised to avoid the orbital period overtones and also sea ice.</p>
Model outputs for validation and inference of high‐resolution information (downscaling) of ENETwild abundance model for wild boar, January 2020 update
<p>These maps are models obtained in intermediate phases of the ENETWILD project based on available information. There are frequent updates in order to improve the results.</p> <p>Objectives:</p> <p>- Validation of previously produced hunting yield maps and new ones<br> - Downscaling to 10x10 km grid >>> file "January_2020_HY_nut01_10x10.tif"<br> - Downscaling to 2x2 km grid >>> file "January_2020_HY_nut00_2x2.tif"</p> <p><br> Model settings and predictors: <br> - Assuming cells as municipality in 10x10 km grid downscaling<br> - Assuming cells as hunting grounds in 2x2 km grid downscaling </p> <p>Conclusions guiding future methodological steps:<br> - To update wild boar hunting yield data for some specific regions<br> - To increase hunting yield data resolution<br> - To explore model independent parametrization for each bioregion</p> <p>For further details and methodological approach see the paper:</p> <p>ENETWILD-consortium, P. Acevedo, S .Croft, G C Smith, J. A. Blanco-Aguiar, J. Fernandez-Lopez, M. Scandura, M. Apollonio, E.Ferroglio, Oliver Keuling, M. Sange, S. Zanet, F. Brivio, T. Podgórski, K.Petrović, G. Body, A. Cohen, R. Soriguer, J. Vicente (2020) Validation and inference of high-resolution information (downscaling) of ENETwild abundance model for wild boar. EFSA supporting publication 2020:EN-1787. 23pp. doi:10.2903/sp.efsa.2020.EN-1787.</p> <p>Permission for reuse hunting yield outputs is granted under the terms indicated by EFSA.<br> </p>
Model outputs for occurrence and hunting data‐based models of wild boar distribution and abundance, July 2019 update
<p>These maps are wild boar habitat suitability outputs based on newly available data of wild boar, and models for predicting wild boar relative abundance using hunting yields.</p> <p><strong>Objectives</strong>:</p> <p>- Validation of previously produced hunting yield maps and new ones<br> - Downscaling to 10x10 km grid<br> - Downscaling to 2x2 km grid</p> <p><strong>Model settings and predictors: </strong> <br> - Model from ENETWILD report August 2019<br> - Assuming cells as municipality in 10x10 km grid downscaling<br> - Assuming cells as hunting grounds in 2x2 km grid downscaling </p> <p><strong>Conclusions guiding future methodological steps</strong><br> - To update wild boar hunting yield data for some specific regions;<br> - To increase hunting yield data resolution;<br> - To explore model independent parametrization for each bioregion.</p> <p><strong>Files:</strong></p> <p>August_2019_HY_nut00_10x10 >> Model outputs based on hunting yield GLM analyses<br> August_2019_occurrences_bioclim >> Model outputs based on Bioclim analyses<br> August_2019_occurrences_glm >> Model outputs based on Generalised linear model<br> August_2019_occurrences_ksvm >> Model outputs based on Support vector Machine analyses<br> August_2019_occurrences_maxent >> Model outputs based on Maxent analyses<br> August_2019_occurrences_randomForest>> Model outputs based on Random Forest analyses</p> <p>---------------------------------------------------------------------------------------------------------------------------------------------------------</p> <p>These maps are models obtained in intermediate phases of the ENETWILD project based on available information. <br> There are frequent updates in order to improve the results. For methodological approach and details check the paper: </p> <p>ENETWILD‐consortium, P. Acevedo, S .Croft, G C Smith, J. A. Blanco-Aguiar, J. Fernandez-Lopez, M. Scandura, M. Apollonio, E.Ferroglio, Oliver Keuling, M. Sange, S. Zanet, F. Brivio, T. Podgórski, K.Petrović, G. Body, A. Cohen, R. Soriguer, J. Vicente (2019). ENETwild modelling of wild boar distribution and abundance: update of occurrence and hunting data‐based models. EFSA Supporting Publications, 16(8), 1674E.<br> <a href="https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fefsa.onlinelibrary.wiley.com%2Fdoi%2Fabs%2F10.2903%2Fsp.efsa.2019.EN-1674&data=02%7C01%7C%7Ca8ad922eefde42f5cb5208d7c5054851%7C406a174be31548bdaa0acdaddc44250b%7C1%7C0%7C637194498792136402&sdata=fqdiYEOqYIlHaDbp5a7kVdGQ6FWuFEydJNhSWOghH%2FQ%3D&reserved=0">https://efsa.onlinelibrary.wiley.com/doi/abs/10.2903/sp.efsa.2019.EN-1674</a></p> <p>.</p> <p>Permission for reuse occurrence outputs records is granted under the terms of a CC-BY-NC license.<br> Permission for reuse hunting yield outputs is granted under the terms indicated by EFSA.</p>
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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.