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‎dev/.documenter-siteinfo.json‎

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{"documenter":{"julia_version":"1.12.5","generation_timestamp":"2026-03-04T08:13:21","documenter_version":"1.17.0"}}
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{"documenter":{"julia_version":"1.12.5","generation_timestamp":"2026-03-04T08:18:01","documenter_version":"1.17.0"}}

‎dev/benchmarking/index.html‎

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‎dev/country_data/index.html‎

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‎dev/index.html‎

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plot(times, exposed, label="exposed")
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plot!(times, hosp, label="hosp")
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xlabel!("Time (days)")
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ylabel!(&quot;# individuals&quot;)</code></pre><img src="index-a25d4155.svg" alt="Example block output"/><pre><code class="language-julia hljs"># plot recorded Rt
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ylabel!(&quot;# individuals&quot;)</code></pre><img src="index-2056bf2c.svg" alt="Example block output"/><pre><code class="language-julia hljs"># plot recorded Rt
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vecRt = Daedalus.Outputs.get_values(data, &quot;Rt&quot;, 1)
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plot(times, vecRt, label=&quot;Rt&quot;)
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xlabel!(&quot;Time (days)&quot;)
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ylabel!(&quot;Rt&quot;)</code></pre><img src="index-2b92cec8.svg" alt="Example block output"/><h2 id="Running-Daedalus-for-a-specific-country"><a class="docs-heading-anchor" href="#Running-Daedalus-for-a-specific-country">Running Daedalus for a specific country</a><a id="Running-Daedalus-for-a-specific-country-1"></a><a class="docs-heading-anchor-permalink" href="#Running-Daedalus-for-a-specific-country" title="Permalink"></a></h2><p>Pass a country name string directly to <code>daedalus</code> to use country-specific demography, contact patterns, and workforce data.</p><pre><code class="language-julia hljs">using Daedalus
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ylabel!(&quot;Rt&quot;)</code></pre><img src="index-cf2af050.svg" alt="Example block output"/><h2 id="Running-Daedalus-for-a-specific-country"><a class="docs-heading-anchor" href="#Running-Daedalus-for-a-specific-country">Running Daedalus for a specific country</a><a id="Running-Daedalus-for-a-specific-country-1"></a><a class="docs-heading-anchor-permalink" href="#Running-Daedalus-for-a-specific-country" title="Permalink"></a></h2><p>Pass a country name string directly to <code>daedalus</code> to use country-specific demography, contact patterns, and workforce data.</p><pre><code class="language-julia hljs">using Daedalus
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using Plots
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# Run the model using UK demography and contact patterns
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plot!(times_uk, hosp_uk, label = &quot;hospitalised&quot;)
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xlabel!(&quot;Time (days)&quot;)
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ylabel!(&quot;# individuals&quot;)
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title!(&quot;United Kingdom — SEIR dynamics&quot;)</code></pre><img src="index-dfc1565b.svg" alt="Example block output"/><pre><code class="language-julia hljs"># Effective reproduction number over time
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title!(&quot;United Kingdom — SEIR dynamics&quot;)</code></pre><img src="index-7ed51313.svg" alt="Example block output"/><pre><code class="language-julia hljs"># Effective reproduction number over time
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rt_uk = Daedalus.Outputs.get_values(data_uk, &quot;Rt&quot;, 1)
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plot(times_uk, rt_uk, label = &quot;Rt&quot;, color = :red)
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hline!([1.0], linestyle = :dash, color = :black, label = &quot;Rt = 1&quot;)
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xlabel!(&quot;Time (days)&quot;)
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ylabel!(&quot;Rt&quot;)
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title!(&quot;United Kingdom — effective reproduction number&quot;)</code></pre><img src="index-aeef5574.svg" alt="Example block output"/><p>See <a href="country_data/#Country-and-pathogen-data">Country and pathogen data</a> for a full overview of the bundled data and how to use pathogen-specific parameters.</p></article><nav class="docs-footer"><a class="docs-footer-nextpage" href="npis/">Implementing interventions »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.17.0 on <span class="colophon-date" title="Wednesday 4 March 2026 08:13">Wednesday 4 March 2026</span>. Using Julia version 1.12.5.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
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title!(&quot;United Kingdom — effective reproduction number&quot;)</code></pre><img src="index-98f062ea.svg" alt="Example block output"/><p>See <a href="country_data/#Country-and-pathogen-data">Country and pathogen data</a> for a full overview of the bundled data and how to use pathogen-specific parameters.</p></article><nav class="docs-footer"><a class="docs-footer-nextpage" href="npis/">Implementing interventions »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.17.0 on <span class="colophon-date" title="Wednesday 4 March 2026 08:18">Wednesday 4 March 2026</span>. Using Julia version 1.12.5.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>

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