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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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    <subfield code="a">&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;</subfield>
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