zenodo_datasets_processed.json

[
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    "created": "2025-01-21T11:35:14.112757+00:00",
    "modified": "2025-05-15T09:12:30.976906+00:00",
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      "title": "BALTRAD_VPTS - Vertical profiles of biological targets derived from European weather radars",
      "doi": "10.5281/zenodo.14711024",
      "publication_date": "2025-01-21",
      "description": "<p><em>BALTRAD_VPTS - Vertical profiles of biological targets derived from European weather radars</em> is a vertical profile time series dataset published by the <a href=\"https://www.inbo.be/en\">Research Institute for Nature and Forest (INBO)</a>. It contains animal movement data derived from 151 European weather radars in 18 countries, with varying coverage from 2012 to 2023. These data were created by processing weather radar data - provided by the Operational Programme for the Exchange of Weather Radar Information (<a href=\"https://www.eumetnet.eu/activities/observations-programme/current-activities/opera/\">OPERA</a>) - with methods optimized for extracting bird targets. The resulting data are vertical profile time series (VPTS), containing the density, speed and direction of biological targets within a weather radar (<code>radar</code>) volume, grouped into altitude bins (<code>height</code>) and measured over time (<code>datetime</code>). The data are also available in the <a href=\"https://aloftdata.eu/browse/?prefix=baltrad/\">Aloft bucket</a>.</p>\n<div>\n<div>See Desmet et al. (2025, <a href=\"https://doi.org/10.1038/s41597-025-04641-5\">https://doi.org/10.1038/s41597-025-04641-5</a>) for a more detailed description of this dataset.</div>\n</div>\n<h2>Files</h2>\n<p>VPTS data in this deposit are organized per country (.tgz file), radar (directory), year (directory) and month (.csv.gz file). Fields in the data follow the&nbsp;<a href=\"https://aloftdata.eu/vpts-csv/\">VPTS CSV</a> format and are described in <code>vpts-csv-table-schema.json</code>. An overview of what data are available is provided in <code>coverage.csv</code>. Radar metadata can be found at <a href=\"https://aloftdata.eu/radars/\">https://aloftdata.eu/radars/</a>.</p>\n<ul>\n<li><strong>coverage.csv</strong>: coverage of the VPTS data, representing the number of unique hours, heights, source files and records for each radar and date combination.</li>\n<li><strong>vpts-csv-table-schema.json</strong>: technical description of the fields in the VPTS data.</li>\n<li><strong>be.tgz</strong>: VPTS data from 2 radars in Belgium.</li>\n<li><strong>ch.tgz</strong>: VPTS data from 5 radars in Switzerland.</li>\n<li><strong>cz.tgz</strong>: VPTS data from 2 radars in Czechia.</li>\n<li><strong>de.tgz</strong>: VPTS data from 20 radars in Germany.</li>\n<li><strong>dk.tgz</strong>: VPTS data from 5 radars in Denmark.</li>\n<li><strong>ee.tgz</strong>: VPTS data from 2 radars in Estonia.</li>\n<li><strong>es.tgz</strong>: VPTS data from 15 radars in Spain.</li>\n<li><strong>fi.tgz</strong>: VPTS data from 13 radars in Finland.</li>\n<li><strong>fr.tgz</strong>: VPTS data from 26 radars in France.</li>\n<li><strong>hr.tgz</strong>: VPTS data from 7 radars in Croatia.</li>\n<li><strong>il.tgz</strong>: VPTS data from 1 radar in Israel.</li>\n<li><strong>nl.tgz</strong>: VPTS data from 3 radars in the Netherlands.</li>\n<li><strong>no.tgz</strong>: VPTS data from 11 radars in Norway.</li>\n<li><strong>pl.tgz</strong>: VPTS data from 8 radars in Poland.</li>\n<li><strong>pt.tgz</strong>: VPTS data from 3 radars in Portugal.</li>\n<li><strong>se.tgz</strong>: VPTS data from 22 radars in Sweden.</li>\n<li><strong>si.tgz</strong>: VPTS data from 2 radars in Slovenia.</li>\n<li><strong>sk.tgz</strong>: VPTS data from 4 radars in Slovakia.</li>\n</ul>\n<h2>Acknowledgements</h2>\n<p>This dataset was processed using infrastructure provided by the University of Amsterdam, SURF Cooperative, Ghent University and the Research Institute for Nature and Forest (INBO). It was mainly supported by the <a href=\"https://globam.science/\">GloBAM project</a>, funded through the 2017-18 Belmont Forum and BiodivERsA joint call for research proposals under the BiodivScen ERA-Net COFUND programme.</p>",
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          "affiliation": "Research Institute for Nature and Forest",
          "orcid": "0000-0002-8442-8025"
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          "name": "Shamoun-Baranes, Judy",
          "affiliation": "University of Amsterdam",
          "orcid": "0000-0002-1652-7646"
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          "affiliation": "University of Amsterdam",
          "orcid": "0000-0001-8303-780X"
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          "affiliation": "University of Amsterdam",
          "orcid": "0000-0001-6573-066X"
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          "affiliation": "Finnish Meteorological Institute",
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          "affiliation": "Swiss Ornithological Institute",
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          "affiliation": "Swedish Meteorological and Hydrological Institute",
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          "affiliation": "University of Amsterdam",
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          "affiliation": "Research Institute for Nature and Forest",
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          "name": "Noé, Nicolas",
          "affiliation": null,
          "orcid": "0000-0002-9503-4750"
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          "affiliation": null,
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          "affiliation": "University of Amsterdam",
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      "title": "Vertical profiles time series of bird density and flight speed vector (01.01.2018-01.01.2019)",
      "doi": "10.5281/zenodo.4587338",
      "publication_date": "2020-01-16",
      "description": "<p><strong>Description</strong></p>\n\n<p>This dataset contains the vertical profiles and integrated time series of bird density and flight speed (NS and EW) generated and used in <a href=\"https://doi.org/10.1101/2020.10.13.321844\">Nussbaumer (2021a)</a> and <a href=\"https://doi.org/10.3390/rs13101989\">Nussbaumer (2021b)</a>. Data are stored in a JavaScript Object Notation (JSON) file for each radar, with the following structure:</p>\n\n<pre><code class=\"language-javascript\">{\n   \"name\"        : \"bejab\", // Code name of the radar (http://eumetnet.eu/wp-content/themes/aeron-child/observations-programme/current-activities/opera/database/OPERA_Database/index.html)\n   \"lat\"         : 51.1917, // Latitude\n   \"lon\"         : 3.0642, // Longitude\n   \"height\"      : 50, // Elevation of the radar antenna [m] a.s.l.\n   \"heightDEM\"   : 0, // Elevation of the ground [m] a.s.l.\n   \"dens\"        : [[...],...], // Bird density [birds/km3]\n   \"sd_vvp\"      : [[...],...], // Radial velocity standard deviation\n   \"densSIMmean\" : [[...],...], // Average bird density over 30 simulation over first elevation bins. (see [reference] for more details). [birds/km3]\n   \"bird\"        : [[...],...], // Bird proportion (0-1)(see [reference] for more details) [-]\n   \"insect\"      : [[...],...], // Insect proportion (0-1) (see [reference] for more details) [-]\n   \"ub\"          : [[...],...], // Bird flight speed in East(+)/West(-) [m/s]\n   \"vb\"          : [[...],...], // Bird flight speed in North(+)/South(-) [m/s]\n   \"ui\"          : [[...],...], // Insect flight speed in East(+)/West(-) [m/s]\n   \"vi\"          : [[...],...], // Insect flight speed in North(+)/South(-) [m/s]\n   \"uw\"          : [[...],...], // Wind speed in East(+)/West(-) [m/s]\n   \"vw\"          : [[...],...], // Wind speed in North(+)/South(-) [m/s]\n   \"volDir\"      : [[...],...], //Normalised volume of air available for flight [m] (see [reference] for more details)\n   \"denss\"        : [...], // Vertically Integrated bird density [birds/km2]\n   \"ubs\"          : [...], // Vertically Integrated bird flight speed in East(+)/West(-) [m/s]\n   \"vbs\"          : [...], // Vertically Integrated bird flight speed in North(+)/South(-) [m/s]\n}</code></pre>\n\n<p>Two dimensional dataset (array of arrays) are given as <code>time</code> x <code>elevation</code>&nbsp;(25x45592) where time is provided as another JSON file included in the archive&nbsp;and elevation bins are centred at <code>[100, 300, 500 , ... , 4900]</code>. Note that the data are rounded at the second decimal place.</p>\n\n<p><strong>Procedure</strong></p>\n\n<p>The procedure is explained in details in the <a href=\"https://royalsocietypublishing.org/doi/suppl/10.1098/rsif.2021.0194\">Supplementary Material</a> of <a href=\"https://doi.org/10.1098/rsif.2021.0194\">Nussbaumer (2021a)</a>&nbsp; and the code is available on the Github repository &nbsp;<a href=\"https://rafnuss-postdoc.github.io/BMM/2018#data-pre-processing\">rafnuss-postdoc.github.io/BMM/2018</a>.</p>\n\n<p>Cleaning of insect contamination is explained in <a href=\"https://doi.org/10.3390/rs13101989\">Nussbaumer (2021b)</a>.</p>\n\n<p><strong>Visualisation</strong></p>\n\n<ul>\n\t<li><a href=\"https://bmm.raphaelnussbaumer.com/2018/\">bmm.raphaelnussbaumer.com/2018</a></li>\n\t<li><a href=\"https://bmm.raphaelnussbaumer.com/explorevp/\">bmm.raphaelnussbaumer.com/explorevp</a></li>\n</ul>",
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        }
      ],
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          "name": "Gravey, Mathieu",
          "affiliation": "University of Lausanne,  Lausanne, Switzerland",
          "type": "Researcher",
          "orcid": "0000-0002-0871-1507"
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          "name": "Schmid, Baptiste",
          "affiliation": "Swiss Ornithological Institute, Sempach, Switzerland",
          "type": "Researcher",
          "orcid": "0000-0002-7736-7527"
        },
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          "name": "Benoit, Lionel",
          "affiliation": "University of Lausanne, Lausanne, Switzerland",
          "type": "Researcher",
          "orcid": "0000-0002-8182-0152"
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          "name": "Liechti, Felix",
          "affiliation": "Swiss Ornithological Institute, Sempach, Switzerland",
          "type": "Researcher",
          "orcid": "0000-0001-9473-0837"
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          "type": "Researcher",
          "orcid": "0000-0002-0844-164X"
        }
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        "bird",
        "biomass flow",
        "weather radar",
        "migration ecology",
        "ornithology",
        "ecological modelling"
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        "Dokter, A.M.; Liechti, F.; Stark, H.; Delobbe, L.; Tabary, P.; Holleman, I. Bird migration flight altitudes studied by a network of operational weather radars. J. R. Soc. Interface 2011, 8, 30–43.",
        "Nussbaumer, Raphaël, Silke Bauer, Lionel Benoit, Grégoire Mariethoz, Felix Liechti, and Baptiste Schmid. 2021. \"Quantifying Year-Round Nocturnal Bird Migration with a Fluid Dynamics Model.\" Journal of The Royal Society Interface 18(179):20210194. doi: 10.1098/rsif.2021.0194.",
        "Nussbaumer, R.; Benoit, L.; Mariethoz, G.; Liechti, F.; Bauer, S.; Schmid, B. A Geostatistical Approach to Estimate High Resolution Nocturnal Bird Migration Densities from a Weather Radar Network. Remote Sens. 2019, 11, 2233.",
        "Nussbaumer, Raphaël, Baptiste Schmid, Silke Bauer, and Felix Liechti. 2021. \"A Gaussian Mixture Model to Separate Birds and Insects in Single-Polarization Weather Radar Data.\" Remote Sensing 13(10):1989. doi: 10.3390/rs13101989."
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      "title": "Supplementary material for 'Revealing patterns of nocturnal migration using the European weather radar network'",
      "doi": "10.5281/zenodo.1172801",
      "publication_date": "2018-04-05",
      "description": "<p>This package contains data, filters and visualizations from <a href=\"https://doi.org/10.1111/ecog.04003\">Nilsson and Dokter et al. (2019)</a>.</p>\n\n<p><strong>Files</strong></p>\n\n<p><strong>radar_metadata.csv</strong>: Metadata for the 84 European radars considered for this study. Includes radar code (<code>odim_code</code> = <code>country</code> + <code>odim_code_3char</code> and alternative radar code <code>vp_radar</code>), radar site location (<code>location</code>, <code>latitude</code>, <code>longitude</code>), radar site elevation (<code>site_altitude_asl</code> in meters above sea level) and radar altitude range used in this study (<code>min_height_cut_asl</code> and <code>max_height_cut_asl</code> in meters above sea level).</p>\n\n<p><strong>vp.zip</strong>: Vertical profiles of birds (vp) data, processed from the radar volume data following procedures described by Dokter et al. (2011), using the vol2bird algorithm in the R package bioRad. 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File lists for each radar the altitudes to include (<code>include_heights</code>), time periods to exclude (<code>exclude_datetimes</code>) and reasons for exclusion (comments). 70 of the 84 radars were retained after filtering.</p>\n\n<p><strong>vp_processed_70_radars_20160919_20161009.csv</strong>: Processed vp data for 70 radars. Is the result of processing <code>vp.zip</code> with <code>vp_processing_settings.yaml</code> and <code>radar_metadata.csv</code> using <a href=\"https://doi.org/10.5281/zenodo.1173544\">vp-processing</a> (Desmet &amp; Nilsson 2018). Note: includes all timestamps: day and night &amp; those marked for exclusion (marked in <code>exclusion_reason</code>). 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The visualization extrapolates the migration over the entire sampling range (cropped in the screencast due to technical limitations and thus excluding the Bulgarian radar), not taking topography or water bodies into account, and shows the ground speed (length of arrows) and direction of migration over time. Note that density is not shown: low density movements can therefore appear as strong as high density movements when ground speeds are similar.</p>\n\n<p><strong>cartoviz.mov:</strong> Screencast of <code>vp_flowviz.csv</code> visualized as an interactive map with <a href=\"https://carto.com\">CARTO</a>. Visualization shows migration density (size of circles) and mean direction (colour) over time. The interactive map is available at <a href=\"https://inbo.carto.com/u/lifewatch/builder/8685140f-8d8c-4d06-9e1e-25d051d43748/embed\">https://inbo.carto.com/u/lifewatch/builder/8685140f-8d8c-4d06-9e1e-25d051d43748/embed</a>.</p>",
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        "Dokter AM, Liechti F, Stark H, Delobbe L, Tabary P & Holleman I (2011) Bird migration flight altitudes studied by a network of operational weather radars. Journal of the Royal Society Interface 8: 30–43. https://doi.org/10.1098/rsif.2010.0116",
        "Desmet P & Nilsson C (2018) Vertical profiles of birds (vp) data processing v1.0 (Version v1.0). Zenodo. https://doi.org/10.5281/zenodo.1173544",
        "Desmet P, Aelterman B & Azijn K (2016) Bird migration flow visualization v2.0 (Version v2.0). Zenodo. https://doi.org/https://doi.org/10.5281/zenodo.5747",
        "Shamoun-Baranes J, Farnsworth A, Aelterman B, Alves JA, Azijn K, Bernstein G, Branco S, Desmet P, Dokter AM, Horton KG, Kelling S, Kelly JF, Leijnse H, Rong J, Sheldon D, Van den Broeck W, Van Den Meersche JK, Van Doren BM & van Gasteren H (2016) Innovative Visualizations Shed Light on Avian Nocturnal Migration. PLOS ONE 11(8): e0160106. https://doi.org/10.1371/journal.pone.0160106"
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      "notes": "Title was updated from \"Data from: 'Europe‐wide patterns of nocturnal avian migration from weather radar data'\" to reflect the final title of the related paper."
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