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ImperialCollegeLondon/covid19model: Nature, 2020 https://www.nature.com/articles/s41586-020-2405-7

Swapnil Mishra; Fabian Valka


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  <identifier identifierType="DOI">10.5281/zenodo.3888697</identifier>
  <creators>
    <creator>
      <creatorName>Swapnil Mishra</creatorName>
      <affiliation>Imperial College London, @ MRC Centre for Global Infectious Disease Analysis</affiliation>
    </creator>
    <creator>
      <creatorName>Fabian Valka</creatorName>
    </creator>
  </creators>
  <titles>
    <title>ImperialCollegeLondon/covid19model: Nature, 2020 https://www.nature.com/articles/s41586-020-2405-7</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2020</publicationYear>
  <dates>
    <date dateType="Issued">2020-06-10</date>
  </dates>
  <resourceType resourceTypeGeneral="Software"/>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/3888697</alternateIdentifier>
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  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsSupplementTo">https://github.com/ImperialCollegeLondon/covid19model/tree/v7.0</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsSupplementTo" resourceTypeGeneral="Text">10.1038/s41586-020-2405-7</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281/zenodo.3888696</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">https://zenodo.org/communities/covid-19</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">https://zenodo.org/communities/zenodo</relatedIdentifier>
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  <version>v7.0</version>
  <rightsList>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
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  <descriptions>
    <description descriptionType="Abstract">&lt;p&gt;This code is the exact code that was used in Flaxman, Mishra, Gandy et al. &amp;quot;Estimating the effects of non-pharmaceutical interventions on COVID-19 in Europe,&amp;quot; Nature, 2020. &lt;a href="https://www.nature.com/articles/s41586-020-2405-7"&gt;https://www.nature.com/articles/s41586-020-2405-7&lt;/a&gt;&lt;/p&gt;

&lt;p&gt;To run the code from the main folder in Rstudio &lt;code&gt;source(&amp;quot;base-nature.r&amp;quot;)&lt;/code&gt; or from the command line &lt;code&gt;Rscript base-nature.r&lt;/code&gt;.&lt;/p&gt;

&lt;p&gt;The code should be run in full mode to obtain results---debug mode is only to check that your environment has the required libraries; results will not be reliable as the MCMC chains will not have converged.&lt;/p&gt;

&lt;p&gt;The repository with posterior draws of the model in Flaxman, Mishra, Gandy et al. &amp;quot;Estimating the effects of non-pharmaceutical interventions on COVID-19 in Europe,&amp;quot; Nature, 2020. &lt;a href="https://www.nature.com/articles/s41586-020-2405-7"&gt;https://www.nature.com/articles/s41586-020-2405-7&lt;/a&gt; is &lt;a href="https://github.com/ImperialCollegeLondon/covid19modelnaturedraws"&gt;here&lt;/a&gt;.&lt;/p&gt;

&lt;p&gt;This code doesn&amp;#39;t supersede our earlier model, it is here for everyone to have direct access to code used in Flaxman, Mishra, Gandy et al. &amp;quot;Estimating the effects of non-pharmaceutical interventions on COVID-19 in Europe,&amp;quot; Nature, 2020.&lt;a href="https://www.nature.com/articles/s41586-020-2405-7"&gt;https://www.nature.com/articles/s41586-020-2405-7&lt;/a&gt;.&lt;/p&gt;

&lt;p&gt;The instructions for European, Italy, Brazil, and USA code are the same as earlier (Look at version 3, version 4, version 5, version 6).&lt;/p&gt;</description>
  </descriptions>
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