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re-render vingettes
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‎inst/doc/vtreat.html‎

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@@ -137,15 +137,15 @@ <h2>A Categorical Outcome Example</h2>
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## 3 c 30
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## 4 &lt;NA&gt; NA</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">treatmentsC &lt;-<span class="st"> </span><span class="kw">designTreatmentsC</span>(dTrainC,<span class="kw">colnames</span>(dTrainC),<span class="st">'y'</span>,<span class="ot">TRUE</span>)</code></pre></div>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:31:14 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:31:14 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:31:14 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:31:14 2017&quot;
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## [1] &quot;design var z Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:31:15 2017&quot;</code></pre>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot;design var z Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:40:59 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:41:00 2017&quot;</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">print</span>(treatmentsC)</code></pre></div>
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<pre><code>## $treatments
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## $treatments[[1]]
@@ -264,15 +264,15 @@ <h2>A Numeric Outcome Example</h2>
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## 3 c 30
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## 4 &lt;NA&gt; NA</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">treatmentsN =<span class="st"> </span><span class="kw">designTreatmentsN</span>(dTrainN,<span class="kw">colnames</span>(dTrainN),<span class="st">'y'</span>)</code></pre></div>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;design var z Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:31:15 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:31:15 2017&quot;</code></pre>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;design var z Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:41:00 2017&quot;</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="kw">print</span>(treatmentsN)</code></pre></div>
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<pre><code>## $treatments
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## $treatments[[1]]

‎inst/doc/vtreatCrossFrames.html‎

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@@ -117,18 +117,18 @@ <h2>The Wrong Way</h2>
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<span class="st">'y'</span>,<span class="ot">TRUE</span>,
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<span class="dt">rareCount=</span><span class="dv">0</span> <span class="co"># Note: usually want rareCount&gt;0, setting to zero to illustrate problem</span>
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)</code></pre></div>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;design var xBad1 Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;design var xBad2 Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;design var xBad3 Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;design var xGood1 Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;design var xGood2 Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:31:16 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:31:17 2017&quot;</code></pre>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;design var xBad1 Thu Apr 13 17:41:00 2017&quot;
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## [1] &quot;design var xBad2 Thu Apr 13 17:41:01 2017&quot;
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## [1] &quot;design var xBad3 Thu Apr 13 17:41:01 2017&quot;
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## [1] &quot;design var xGood1 Thu Apr 13 17:41:01 2017&quot;
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## [1] &quot;design var xGood2 Thu Apr 13 17:41:01 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:41:01 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:41:01 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:41:01 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:41:02 2017&quot;</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">dTrainTreated &lt;-<span class="st"> </span>vtreat::<span class="kw">prepare</span>(treatments,dTrain,
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<span class="dt">pruneSig=</span><span class="kw">c</span>() <span class="co"># Note: usually want pruneSig to be a small fraction, setting to null to illustrate problems</span>
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)
@@ -197,18 +197,18 @@ <h2>The Right Way: A Calibration Set</h2>
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<span class="st">'y'</span>,<span class="ot">TRUE</span>,
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<span class="dt">rareCount=</span><span class="dv">0</span> <span class="co"># Note: usually want rareCount&gt;0, setting to zero to illustrate problem</span>
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)</code></pre></div>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;design var xBad1 Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;design var xBad2 Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;design var xBad3 Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;design var xGood1 Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;design var xGood2 Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:31:17 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:31:18 2017&quot;</code></pre>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;design var xBad1 Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;design var xBad2 Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;design var xBad3 Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;design var xGood1 Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;design var xGood2 Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:41:02 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:41:02 2017&quot;</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">dTrainTreated &lt;-<span class="st"> </span>vtreat::<span class="kw">prepare</span>(treatments,dTrain,
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<span class="dt">pruneSig=</span>pruneSig)
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newvars &lt;-<span class="st"> </span><span class="kw">setdiff</span>(<span class="kw">colnames</span>(dTrainTreated),<span class="st">'y'</span>)

‎inst/doc/vtreatGrouping.html‎

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‎inst/doc/vtreatOverfit.html‎

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@@ -96,14 +96,14 @@ <h2>Bad Practice: Using the same data to treat and to train</h2>
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treatments &lt;-<span class="st"> </span>vtreat::<span class="kw">designTreatmentsC</span>(dTrain,<span class="st">'x'</span>,<span class="st">'y'</span>,<span class="ot">TRUE</span>,
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<span class="dt">rareCount=</span><span class="dv">0</span> <span class="co"># Note: usually want rareCount&gt;0, setting to zero to illustrate problem</span>
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)</code></pre></div>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:31:24 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:31:24 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:31:24 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:31:24 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:31:24 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:31:24 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:31:24 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:31:24 2017&quot;</code></pre>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:41:08 2017&quot;</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">dTrainTreated &lt;-<span class="st"> </span>vtreat::<span class="kw">prepare</span>(treatments,dTrain,
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<span class="dt">pruneSig=</span><span class="kw">c</span>() <span class="co"># Note: usually want pruneSig to be a small fraction, setting to null to illustrate problem</span>
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)
@@ -195,14 +195,14 @@ <h2>Correct Practice 1/2: Use different data to treat and train</h2>
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<span class="dt">rareCount=</span><span class="dv">0</span>, <span class="co"># Note set this to something larger, like 5</span>
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<span class="dt">rareSig=</span><span class="kw">c</span>() <span class="co"># Note set this to something like 0.3</span>
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)</code></pre></div>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:31:25 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:31:25 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:31:25 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:31:25 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:31:25 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:31:25 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:31:25 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:31:25 2017&quot;</code></pre>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;design var x Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:41:08 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:41:08 2017&quot;</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">dTrainTreated &lt;-<span class="st"> </span>vtreat::<span class="kw">prepare</span>(treatments,dTrain,
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<span class="dt">pruneSig=</span><span class="kw">c</span>() <span class="co"># Note: set this to filter, like 0.05 or 1/nvars</span>
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)

‎inst/doc/vtreatSignificance.html‎

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## 2 FALSE lev002 lev002F
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## 252 FALSE lev002 lev002F</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r">treatmentsC &lt;-<span class="st"> </span>vtreat::<span class="kw">designTreatmentsC</span>(d,<span class="kw">c</span>(<span class="st">'catVarNoise'</span>,<span class="st">'catVarPerfect'</span>),<span class="st">'y'</span>,<span class="ot">TRUE</span>)</code></pre></div>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:31:31 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:31:31 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:31:32 2017&quot;
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## [1] &quot;design var catVarNoise Thu Apr 13 17:31:32 2017&quot;
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## [1] &quot;design var catVarPerfect Thu Apr 13 17:31:32 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:31:32 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:31:32 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:31:32 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:31:32 2017&quot;</code></pre>
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<pre><code>## [1] &quot;desigining treatments Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot;designing treatments Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot; have level statistics Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot;design var catVarNoise Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot;design var catVarPerfect Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot; scoring treatments Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot;have treatment plan Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot;rescoring complex variables Thu Apr 13 17:41:15 2017&quot;
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## [1] &quot;done rescoring complex variables Thu Apr 13 17:41:15 2017&quot;</code></pre>
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<div class="sourceCode"><pre class="sourceCode r"><code class="sourceCode r"><span class="co"># Estimate effect significance (not coefficient significance).</span>
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estSigGLM &lt;-<span class="st"> </span>function(xVar,yVar,<span class="dt">numberOfHiddenDegrees=</span><span class="dv">0</span>) {
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d &lt;-<span class="st"> </span><span class="kw">data.frame</span>(<span class="dt">x=</span>xVar,<span class="dt">y=</span>yVar,<span class="dt">stringsAsFactors =</span> <span class="ot">FALSE</span>)

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