Dataset Open Access

Dataset: Quantifying cell densities and biovolumes of phytoplankton communities and functional groups using scanning flow cytometry, machine learning and unsupervised clustering

Thomas, Mridul K.; Fontana, Simone; Reyes, Marta; Pomati, Francesco


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{
  "description": "<p>This dataset contains all relevant data\u00a0for the manuscript (in submission) \"<em>Quantifying cell densities and biovolumes of phytoplankton communities and functional groups using scanning flow cytometry, machine learning and unsupervised clustering</em>\".</p>\n\n<p>Code written to analyse this dataset (which may be adapted for other flow cytometry datasets) is found at https://zenodo.org/record/999747</p>\n\n<p>--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</p>\n\n<p>Naming convention for raw flow cytometry data files (located in /Script 3. Generating raw data subset/input/):</p>\n\n<p>[Allparameters] _ [Year] - [Month] - [Date]\u00a0 [Hour] [u] [Minute] _ [Depth]</p>\n\n<p>e.g:\u00a0Allparameters_2014-07-31 08u08_1.0m</p>\n\n<p>The date, time and depth indicate the location and time at which the measurement was taken.</p>", 
  "license": "https://creativecommons.org/licenses/by/4.0/legalcode", 
  "creator": [
    {
      "affiliation": "Centre for Ocean Life, Technical University of Denmark, Kemitorvet, Building 202, 2800 Kgs. Lyngby, Denmark", 
      "@type": "Person", 
      "name": "Thomas, Mridul K."
    }, 
    {
      "affiliation": "Swiss Federal Institute for Forest, Snow and Landscape Research (WSL), Z\u00fcrcherstrasse 111, 8903 Birmensdorf", 
      "@type": "Person", 
      "name": "Fontana, Simone"
    }, 
    {
      "affiliation": "Dept. of Aquatic Ecology, Eawag: Swiss Federal Institute of Aquatic Science and Technology, \u00dcberlandstrasse 133, 8600 D\u00fcbendorf, Switzerland", 
      "@type": "Person", 
      "name": "Reyes, Marta"
    }, 
    {
      "affiliation": "Dept. of Aquatic Ecology, Eawag: Swiss Federal Institute of Aquatic Science and Technology, \u00dcberlandstrasse 133, 8600 D\u00fcbendorf, Switzerland", 
      "@type": "Person", 
      "name": "Pomati, Francesco"
    }
  ], 
  "url": "https://zenodo.org/record/977773", 
  "datePublished": "2017-09-28", 
  "keywords": [
    "phytoplankton, flow cytometry, automated monitoring, traits"
  ], 
  "@context": "https://schema.org/", 
  "distribution": [
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 1. Training biovolume estimation.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 2. Identifying important variables for data cleaning.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 3. Generating raw data subset.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 4. Cleaning by clustering.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 5. Generating cleaned data subset.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 6. Calculating cell density.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 7. Identifying important variables for group distinction.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }, 
    {
      "contentUrl": "https://zenodo.org/api/files/f4a68b7e-7677-4862-adfa-65b02bfed04a/Script 8. Calculating cell densities of clusters.zip", 
      "encodingFormat": "zip", 
      "@type": "DataDownload"
    }
  ], 
  "identifier": "https://doi.org/10.5281/zenodo.977773", 
  "@id": "https://doi.org/10.5281/zenodo.977773", 
  "@type": "Dataset", 
  "name": "Dataset: Quantifying cell densities and biovolumes of phytoplankton communities and functional groups using scanning flow cytometry, machine learning and unsupervised clustering"
}
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