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(v1.8.1.9004) fix for table() on MICs
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dr. M.S. (Matthijs) Berends committed
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@@ -17,7 +17,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="../index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.8.1</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Released version">1.8.1.9004</span>
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</span>
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</div>
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@@ -30,7 +30,7 @@
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</a>
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</li>
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<li class="dropdown">
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">
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<a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" data-bs-toggle="dropdown" aria-expanded="false">
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<span class="fa fa-question-circle"></span>
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How to
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@@ -166,19 +166,27 @@
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<span class="va">NA_mic_</span>
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<span class="fu">is.mic</span><span class="op">(</span><span class="va">x</span><span class="op">)</span></code></pre></div>
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<span class="fu">is.mic</span><span class="op">(</span><span class="va">x</span><span class="op">)</span>
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<span class="co"># S3 method for mic</span>
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<span class="fu"><a href="https://rdrr.io/r/base/droplevels.html" class="external-link">droplevels</a></span><span class="op">(</span>
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<span class="va">x</span>,
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exclude <span class="op">=</span> <span class="kw">if</span> <span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/any.html" class="external-link">any</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/NA.html" class="external-link">is.na</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/levels.html" class="external-link">levels</a></span><span class="op">(</span><span class="va">x</span><span class="op">)</span><span class="op">)</span><span class="op">)</span><span class="op">)</span> <span class="cn">NULL</span> <span class="kw">else</span> <span class="cn">NA</span>,
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as.mic <span class="op">=</span> <span class="cn">FALSE</span>,
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<span class="va">...</span>
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<span class="op">)</span></code></pre></div>
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</div>
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<div id="format">
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<h2>Format</h2>
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<p>An object of class <code>mic</code> (inherits from <code>ordered</code>, <code>factor</code>) of length 1.</p>
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</div>
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<div id="arguments">
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<h2>Arguments</h2>
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<dl><dt>x</dt>
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<dd><p>a <a href="https://rdrr.io/r/base/character.html" class="external-link">character</a> or <a href="https://rdrr.io/r/base/numeric.html" class="external-link">numeric</a> vector</p></dd>
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<dt>na.rm</dt>
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<dd><p>a <a href="https://rdrr.io/r/base/logical.html" class="external-link">logical</a> indicating whether missing values should be removed</p></dd>
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<dt>exclude</dt>
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<dd><p>factor levels which should be excluded from the result even if present, see <a href="https://rdrr.io/r/base/droplevels.html" class="external-link">droplevels()</a></p></dd>
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<dt>as.mic</dt>
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<dd><p>a <a href="https://rdrr.io/r/base/logical.html" class="external-link">logical</a> to indicate whether the <code><mic></code> class should be kept, defaults to <code>FALSE</code></p></dd>
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</dl></div>
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<div id="value">
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<h2>Value</h2>
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@@ -186,7 +194,7 @@
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</div>
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<div id="details">
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<h2>Details</h2>
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<p>To interpret MIC values as RSI values, use <code><a href="as.rsi.html">as.rsi()</a></code> on MIC values. It supports guidelines from EUCAST and CLSI.</p>
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<p>To interpret MIC values as RSI values, use <code><a href="as.rsi.html">as.rsi()</a></code> on MIC values. It supports guidelines from EUCAST (2011-2021) and CLSI (2010-2021).</p>
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<p>This class for MIC values is a quite a special data type: formally it is an ordered <a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a> with valid MIC values as <a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a> levels (to make sure only valid MIC values are retained), but for any mathematical operation it acts as decimal numbers:</p><div class="sourceCode"><pre><code><span class="va">x</span> <span class="op"><-</span> <span class="fu"><a href="../reference/random.html">random_mic</a></span><span class="op">(</span><span class="fl">10</span><span class="op">)</span>
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<span class="va">x</span>
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<span class="co">#> Class <mic></span>
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@@ -216,7 +224,9 @@
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<span class="co">#> 10 16 A</span></code></pre></div>
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<p>The following <a href="https://rdrr.io/r/base/groupGeneric.html" class="external-link">generic functions</a> are implemented for the MIC class: <code>!</code>, <code>!=</code>, <code>%%</code>, <code>%/%</code>, <code>&</code>, <code>*</code>, <code>+</code>, <code>-</code>, <code>/</code>, <code><</code>, <code><=</code>, <code>==</code>, <code>></code>, <code>>=</code>, <code>^</code>, <code>|</code>, <code><a href="https://rdrr.io/r/base/MathFun.html" class="external-link">abs()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">acos()</a></code>, <code><a href="https://rdrr.io/r/base/Hyperbolic.html" class="external-link">acosh()</a></code>, <code><a href="https://rdrr.io/r/base/all.html" class="external-link">all()</a></code>, <code><a href="https://rdrr.io/r/base/any.html" class="external-link">any()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">asin()</a></code>, <code><a href="https://rdrr.io/r/base/Hyperbolic.html" class="external-link">asinh()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">atan()</a></code>, <code><a href="https://rdrr.io/r/base/Hyperbolic.html" class="external-link">atanh()</a></code>, <code><a href="https://rdrr.io/r/base/Round.html" class="external-link">ceiling()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">cos()</a></code>, <code><a href="https://rdrr.io/r/base/Hyperbolic.html" class="external-link">cosh()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">cospi()</a></code>, <code><a href="https://rdrr.io/r/base/cumsum.html" class="external-link">cummax()</a></code>, <code><a href="https://rdrr.io/r/base/cumsum.html" class="external-link">cummin()</a></code>, <code><a href="https://rdrr.io/r/base/cumsum.html" class="external-link">cumprod()</a></code>, <code><a href="https://rdrr.io/r/base/cumsum.html" class="external-link">cumsum()</a></code>, <code><a href="https://rdrr.io/r/base/Special.html" class="external-link">digamma()</a></code>, <code><a href="https://rdrr.io/r/base/Log.html" class="external-link">exp()</a></code>, <code><a href="https://rdrr.io/r/base/Log.html" class="external-link">expm1()</a></code>, <code><a href="https://rdrr.io/r/base/Round.html" class="external-link">floor()</a></code>, <code><a href="https://rdrr.io/r/base/Special.html" class="external-link">gamma()</a></code>, <code><a href="https://rdrr.io/r/base/Special.html" class="external-link">lgamma()</a></code>, <code><a href="https://rdrr.io/r/base/Log.html" class="external-link">log()</a></code>, <code><a href="https://rdrr.io/r/base/Log.html" class="external-link">log1p()</a></code>, <code><a href="https://rdrr.io/r/base/Log.html" class="external-link">log2()</a></code>, <code><a href="https://rdrr.io/r/base/Log.html" class="external-link">log10()</a></code>, <code><a href="https://rdrr.io/r/base/Extremes.html" class="external-link">max()</a></code>, <code><a href="https://rdrr.io/r/base/mean.html" class="external-link">mean()</a></code>, <code><a href="https://rdrr.io/r/base/Extremes.html" class="external-link">min()</a></code>, <code><a href="https://rdrr.io/r/base/prod.html" class="external-link">prod()</a></code>, <code><a href="https://rdrr.io/r/base/range.html" class="external-link">range()</a></code>, <code><a href="https://rdrr.io/r/base/Round.html" class="external-link">round()</a></code>, <code><a href="https://rdrr.io/r/base/sign.html" class="external-link">sign()</a></code>, <code><a href="https://rdrr.io/r/base/Round.html" class="external-link">signif()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">sin()</a></code>, <code><a href="https://rdrr.io/r/base/Hyperbolic.html" class="external-link">sinh()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">sinpi()</a></code>, <code><a href="https://rdrr.io/r/base/MathFun.html" class="external-link">sqrt()</a></code>, <code><a href="https://rdrr.io/r/base/sum.html" class="external-link">sum()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">tan()</a></code>, <code><a href="https://rdrr.io/r/base/Hyperbolic.html" class="external-link">tanh()</a></code>, <code><a href="https://rdrr.io/r/base/Trig.html" class="external-link">tanpi()</a></code>, <code><a href="https://rdrr.io/r/base/Special.html" class="external-link">trigamma()</a></code> and <code><a href="https://rdrr.io/r/base/Round.html" class="external-link">trunc()</a></code>. Some functions of the <code>stats</code> package are also implemented: <code><a href="https://rdrr.io/r/stats/median.html" class="external-link">median()</a></code>, <code><a href="https://rdrr.io/r/stats/quantile.html" class="external-link">quantile()</a></code>, <code><a href="https://rdrr.io/r/stats/mad.html" class="external-link">mad()</a></code>, <code><a href="https://rdrr.io/r/stats/IQR.html" class="external-link">IQLine truncated
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<p><code>NA_mic_</code> is a missing value of the new <code><mic></code> class.</p>
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<p>Using <code><a href="https://rdrr.io/r/base/double.html" class="external-link">as.double()</a></code> or <code><a href="https://rdrr.io/r/base/numeric.html" class="external-link">as.numeric()</a></code> on MIC values will remove the operators and return a numeric vector. Do <strong>not</strong> use <code><a href="https://rdrr.io/r/base/integer.html" class="external-link">as.integer()</a></code> on MIC values as by the <span style="R">R</span> convention on <a href="https://rdrr.io/r/base/factor.html" class="external-link">factor</a>s, it will return the index of the factor levels (which is often useless for regular users).</p>
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<p>Use <code><a href="https://rdrr.io/r/base/droplevels.html" class="external-link">droplevels()</a></code> to drop unused levels. At default, it will return a plain factor. Use <code>droplevels(..., as.mic = TRUE)</code> to maintain the <code><mic></code> class.</p>
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<p><code>NA_mic_</code> is a missing value of the new <code><mic></code> class, analogous to e.g. base <span style="R">R</span>'s <code><a href="https://rdrr.io/r/base/NA.html" class="external-link">NA_character_</a></code>.</p>
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</div>
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<div id="stable-lifecycle">
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<h2>Stable Lifecycle</h2>
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@@ -277,7 +287,7 @@ The <a href="lifecycle.html">lifecycle</a> of this function is <strong>stable</s
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</div>
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<div class="pkgdown">
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<p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.2.</p>
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<p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.3.</p>
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