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resistance predict update

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dr. M.S. (Matthijs) Berends
2019-02-11 10:27:10 +01:00
parent 96495d363a
commit 76ed26d27e
39 changed files with 1296 additions and 549 deletions
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docs/news/index.html
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@ -108,7 +108,7 @@
</a>
</li>
<li>
<a href="../articles/Predict.html">
<a href="../articles/resistance_predict.html">
<span class="fa fa-dice"></span>
Predict antimicrobial resistance
@ -129,14 +129,14 @@
</a>
</li>
<li>
<a href="../articles/mo_property.html">
<a href="../reference/mo_property.html">
<span class="fa fa-bug"></span>
Get properties of a microorganism
</a>
</li>
<li>
<a href="../articles/ab_property.html">
<a href="../reference/atc_property.html">
<span class="fa fa-capsules"></span>
Get properties of an antibiotic
@ -798,7 +798,7 @@ These functions use <code><a href="../reference/as.atc.html">as.atc()</a></code>
<ul>
<li>Full support for Windows, Linux and macOS</li>
<li>Full support for old R versions, only R-3.0.0 (April 2013) or later is needed (needed packages may have other dependencies)</li>
<li>Function <code>n_rsi</code> to count cases where antibiotic test results were available, to be used in conjunction with <code><a href="https://dplyr.tidyverse.org/reference/summarise.html">dplyr::summarise</a></code>, see ?rsi</li>
<li>Function <code>n_rsi</code> to count cases where antibiotic test results were available, to be used in conjunction with <code><a href="https://www.rdocumentation.org/packages/dplyr/topics/summarise">dplyr::summarise</a></code>, see ?rsi</li>
<li>Function <code>guess_bactid</code> to <strong>determine the ID</strong> of a microorganism based on genus/species or known abbreviations like MRSA</li>
<li>Function <code>guess_atc</code> to <strong>determine the ATC</strong> of an antibiotic based on name, trade name, or known abbreviations</li>
<li>Function <code>freq</code> to create <strong>frequency tables</strong>, with additional info in a header</li>