updated rendered website. GP solution wasn't working for some reason,…

… had to turn off evaluation of the last large code chunk

docs/GP_Solutions.html

@@ -254,7 +254,7 @@ <h5 class="anchored" data-anchor-id="challenges">Challenges</h5>
 <div class="sourceCode cell-code" id="cb6"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb6-1"><a href="#cb6-1" aria-hidden="true" tabindex="-1"></a><span class="co"># Pulling the data from the NEON data base. </span></span>
 <span id="cb6-2"><a href="#cb6-2" aria-hidden="true" tabindex="-1"></a>target <span class="ot">&lt;-</span> readr<span class="sc">::</span><span class="fu">read_csv</span>(<span class="st">"https://data.ecoforecast.org/neon4cast-targets/ticks/ticks-targets.csv.gz"</span>, <span class="at">guess_max =</span> <span class="fl">1e1</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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-<pre><code>Rows: 637 Columns: 5
+<pre><code>Rows: 505 Columns: 5
 ── Column specification ────────────────────────────────────────────────────────
 Delimiter: ","
 chr  (3): site_id, variable, iso_week
@@ -408,7 +408,7 @@ <h6 class="anchored" data-anchor-id="fit-a-gp-model-for-the-location-serc-i.e.-s
 <span id="cb12-8"><a href="#cb12-8" aria-hidden="true" tabindex="-1"></a>rmse <span class="ot">&lt;-</span> <span class="fu">sqrt</span>(<span class="fu">mean</span>((yt_true <span class="sc">-</span> yt_pred)<span class="sc">^</span><span class="dv">2</span>))</span>
 <span id="cb12-9"><a href="#cb12-9" aria-hidden="true" tabindex="-1"></a>rmse</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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-<pre><code>[1] 0.9553652</code></pre>
+<pre><code>[1] 1.681545</code></pre>
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@@ -570,7 +570,7 @@ <h6 class="anchored" data-anchor-id="use-an-environmental-predictor-in-your-mode
 <span id="cb21-8"><a href="#cb21-8" aria-hidden="true" tabindex="-1"></a>rmse <span class="ot">&lt;-</span> <span class="fu">sqrt</span>(<span class="fu">mean</span>((yt_true <span class="sc">-</span> yt_pred)<span class="sc">^</span><span class="dv">2</span>))</span>
 <span id="cb21-9"><a href="#cb21-9" aria-hidden="true" tabindex="-1"></a>rmse</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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-<pre><code>[1] 0.9532001</code></pre>
+<pre><code>[1] 1.738574</code></pre>
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 <span id="cb24-70"><a href="#cb24-70" aria-hidden="true" tabindex="-1"></a></span>
 <span id="cb24-71"><a href="#cb24-71" aria-hidden="true" tabindex="-1"></a>  <span class="co"># calculate RMSE</span></span>
 <span id="cb24-72"><a href="#cb24-72" aria-hidden="true" tabindex="-1"></a>  rmse[i, ] <span class="ot">&lt;-</span> <span class="fu">sqrt</span>(<span class="fu">mean</span>((yt_true <span class="sc">-</span> yt_pred)<span class="sc">^</span><span class="dv">2</span>))</span>
-<span id="cb24-73"><a href="#cb24-73" aria-hidden="true" tabindex="-1"></a>}</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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-<div class="sourceCode cell-code" id="cb25"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb25-1"><a href="#cb25-1" aria-hidden="true" tabindex="-1"></a><span class="fu">rownames</span>(rmse) <span class="ot">&lt;-</span> site_names</span>
-<span id="cb25-2"><a href="#cb25-2" aria-hidden="true" tabindex="-1"></a><span class="fu">print</span>(rmse)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
-<div class="cell-output cell-output-stdout">
-<pre><code>          [,1]
-BLAN 1.1173576
-KONZ 0.7779042
-LENO 0.6851390
-ORNL 0.9205952
-OSBS 1.2057049
-SCBI 0.8610973
-SERC 0.9532001
-TALL 1.2216955
-UKFS 2.0705090</code></pre>
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+<span id="cb24-73"><a href="#cb24-73" aria-hidden="true" tabindex="-1"></a>}</span>
+<span id="cb24-74"><a href="#cb24-74" aria-hidden="true" tabindex="-1"></a></span>
+<span id="cb24-75"><a href="#cb24-75" aria-hidden="true" tabindex="-1"></a><span class="fu">rownames</span>(rmse) <span class="ot">&lt;-</span> site_names</span>
+<span id="cb24-76"><a href="#cb24-76" aria-hidden="true" tabindex="-1"></a><span class="fu">print</span>(rmse)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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docs/Stats_review.html

@@ -353,7 +353,7 @@ <h1>Random Variables (RVs)</h1>
 <li>discrete (numbers of items or successes)</li>
 <li>continuous (heights, times, weights)</li>
 </ul>
-<p>We usually use capital letters – e.g.&nbsp;<span class="math inline">X</span>, <span class="math inline">Y</span>, sometimes with bold or with subscripts – to denote the RVs. In contrast we use lower case letters, e.g.&nbsp;<span class="math inline">x</span>, <span class="math inline">y</span>, <span class="math inline">k</span>, to denote the values that the RV takes. For instance, lets say that the heights of the woman at Virginia Tech are the RV, <span class="math inline">X</span>, and <span class="math inline">X</span> has a normal distribution with mean 62 inches and variance 6<span class="math inline">^2</span>, i.e., <span class="math inline">X \sim \mathrm{N}(62,6^2)</span> distribution. Say we then observe the heights of 3 individuals drawn from this distribution – we would write this as: <span class="math inline">x=(</span> 69.2, 63.3, 61.3 <span class="math inline">)</span>.</p>
+<p>We usually use capital letters – e.g.&nbsp;<span class="math inline">X</span>, <span class="math inline">Y</span>, sometimes with bold or with subscripts – to denote the RVs. In contrast we use lower case letters, e.g.&nbsp;<span class="math inline">x</span>, <span class="math inline">y</span>, <span class="math inline">k</span>, to denote the values that the RV takes. For instance, lets say that the heights of the woman at Virginia Tech are the RV, <span class="math inline">X</span>, and <span class="math inline">X</span> has a normal distribution with mean 62 inches and variance 6<span class="math inline">^2</span>, i.e., <span class="math inline">X \sim \mathrm{N}(62,6^2)</span> distribution. Say we then observe the heights of 3 individuals drawn from this distribution – we would write this as: <span class="math inline">x=(</span> 65.4, 51.6, 57 <span class="math inline">)</span>.</p>
 <p><br> <br> </p>
 </section>
 <section id="probability-distributions" class="level1">
@@ -577,7 +577,7 @@ <h1>Probability Distributions in <code>R</code></h1>
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 <div class="sourceCode cell-code" id="cb3"><pre class="sourceCode r code-with-copy"><code class="sourceCode r"><span id="cb3-1"><a href="#cb3-1" aria-hidden="true" tabindex="-1"></a><span class="fu">rnorm</span>(<span class="dv">3</span>, <span class="at">mean=</span><span class="dv">0</span>, <span class="at">sd=</span><span class="dv">1</span>) <span class="do">## random draws</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
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-<pre><code>[1] -1.1472029 -0.2967273 -1.4990834</code></pre>
+<pre><code>[1]  0.9009996 -0.9278357 -0.8531892</code></pre>
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