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(v0.7.1.9097) mdro() examples fix
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Package: AMR
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Version: 0.7.1.9096
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Version: 0.7.1.9097
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Date: 2019-10-07
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Title: Antimicrobial Resistance Analysis
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Authors@R: c(
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2
NEWS.md
2
NEWS.md
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# AMR 0.7.1.9096
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# AMR 0.7.1.9097
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<small>Last updated: 07-Oct-2019</small>
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### Breaking
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6
R/mdro.R
6
R/mdro.R
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#' MRGN = mrgn(.))
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#'
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#' example_isolates %>%
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#' rename(PIP = TZP) # no piperacillin, so take piperacillin/tazobactam
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#' mrgn() %>% # check German guideline
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#' freq() # check frequencies
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#' rename(PIP = TZP) %>% # no piperacillin, so take piperacillin/tazobactam
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#' mrgn() %>% # check German guideline
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#' freq() # check frequencies
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mdro <- function(x,
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guideline = NULL,
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col_mo = NULL,
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@ -84,7 +84,7 @@
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</button>
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<span class="navbar-brand">
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<a class="navbar-link" href="https://msberends.gitlab.io/AMR/index.html">AMR (for R)</a>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -84,7 +84,7 @@
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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="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -84,7 +84,7 @@
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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="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -84,7 +84,7 @@
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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="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -43,7 +43,7 @@
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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="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -84,7 +84,7 @@
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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="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -231,9 +231,9 @@
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</div>
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<div id="amr-0-7-1-9096" class="section level1">
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<div id="amr-0-7-1-9097" class="section level1">
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<h1 class="page-header">
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<a href="#amr-0-7-1-9096" class="anchor"></a>AMR 0.7.1.9096<small> Unreleased </small>
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<a href="#amr-0-7-1-9097" class="anchor"></a>AMR 0.7.1.9097<small> Unreleased </small>
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</h1>
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<p><small>Last updated: 07-Oct-2019</small></p>
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<div id="breaking" class="section level3">
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@ -1289,7 +1289,7 @@ Using <code><a href="../reference/as.mo.html">as.mo(..., allow_uncertain = 3)</a
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<div id="tocnav">
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<h2>Contents</h2>
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<ul class="nav nav-pills nav-stacked">
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<li><a href="#amr-0-7-1-9096">0.7.1.9096</a></li>
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<li><a href="#amr-0-7-1-9097">0.7.1.9097</a></li>
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<li><a href="#amr-0-7-1">0.7.1</a></li>
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<li><a href="#amr-0-7-0">0.7.0</a></li>
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<li><a href="#amr-0-6-1">0.6.1</a></li>
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@ -84,7 +84,7 @@
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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="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -85,7 +85,7 @@
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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="Latest development version">0.7.1.9096</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.7.1.9097</span>
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</span>
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</div>
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@ -394,9 +394,9 @@
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<span class='kw'>MRGN</span> <span class='kw'>=</span> <span class='fu'>mrgn</span>(<span class='no'>.</span>))
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<span class='no'>example_isolates</span> <span class='kw'>%>%</span>
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<span class='fu'><a href='https://dplyr.tidyverse.org/reference/select.html'>rename</a></span>(<span class='kw'>PIP</span> <span class='kw'>=</span> <span class='no'>TZP</span>) <span class='co'># no piperacillin, so take piperacillin/tazobactam</span>
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<span class='fu'>mrgn</span>() <span class='kw'>%>%</span> <span class='co'># check German guideline</span>
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<span class='fu'><a href='https://rdrr.io/pkg/clean/man/freq.html'>freq</a></span>() <span class='co'># check frequencies</span></pre>
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<span class='fu'><a href='https://dplyr.tidyverse.org/reference/select.html'>rename</a></span>(<span class='kw'>PIP</span> <span class='kw'>=</span> <span class='no'>TZP</span>) <span class='kw'>%>%</span> <span class='co'># no piperacillin, so take piperacillin/tazobactam</span>
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<span class='fu'>mrgn</span>() <span class='kw'>%>%</span> <span class='co'># check German guideline</span>
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<span class='fu'><a href='https://rdrr.io/pkg/clean/man/freq.html'>freq</a></span>() <span class='co'># check frequencies</span></pre>
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</div>
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<div class="col-md-3 hidden-xs hidden-sm" id="sidebar">
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<h2>Contents</h2>
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@ -154,7 +154,7 @@ example_isolates \%>\%
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MRGN = mrgn(.))
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example_isolates \%>\%
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rename(PIP = TZP) # no piperacillin, so take piperacillin/tazobactam
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mrgn() \%>\% # check German guideline
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freq() # check frequencies
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rename(PIP = TZP) \%>\% # no piperacillin, so take piperacillin/tazobactam
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mrgn() \%>\% # check German guideline
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freq() # check frequencies
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}
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