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(v0.9.0.9027) documentation fix
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Package: AMR
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Version: 0.9.0.9026
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Version: 0.9.0.9027
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Date: 2020-02-17
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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 0.9.0.9026
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# AMR 0.9.0.9027
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## <small>Last updated: 17-Feb-2020</small>
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### New
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3
R/disk.R
3
R/disk.R
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#' @inheritSection AMR Read more on our website!
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#' @examples
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#' # transform existing disk zones to the `disk` class
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#' library(dplyr)
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#' df <- data.frame(microorganism = "E. coli",
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#' AMP = 20,
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#' CIP = 14,
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#' GEN = 18,
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#' TOB = 16)
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#' df <- df %>% mutate_at(vars(AMP:TOB, as.disk))
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#' df <- df %>% mutate_at(vars(AMP:TOB), as.disk)
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#' df
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#'
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#' # interpret disk values, see ?as.rsi
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@ -78,7 +78,7 @@
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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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</span>
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</span>
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</div>
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@ -78,7 +78,7 @@
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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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</span>
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</span>
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</div>
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@ -78,7 +78,7 @@
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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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</span>
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</span>
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</div>
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@ -78,7 +78,7 @@
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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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</span>
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</span>
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</div>
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@ -78,7 +78,7 @@
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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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</span>
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</span>
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</div>
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@ -219,9 +219,9 @@
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</div>
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<div id="amr-0909026" class="section level1">
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<div id="amr-0909027" class="section level1">
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<h1 class="page-header">
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<a href="#amr-0909026" class="anchor"></a>AMR 0.9.0.9026<small> Unreleased </small>
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<a href="#amr-0909027" class="anchor"></a>AMR 0.9.0.9027<small> Unreleased </small>
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</h1>
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<div id="last-updated-17-feb-2020" class="section level2">
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<h2 class="hasAnchor">
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@ -1450,7 +1450,7 @@
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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-0909026">0.9.0.9026</a></li>
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<li><a href="#amr-0909027">0.9.0.9027</a></li>
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<li><a href="#amr-090">0.9.0</a></li>
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<li><a href="#amr-080">0.8.0</a></li>
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<li><a href="#amr-071">0.7.1</a></li>
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@ -79,7 +79,7 @@
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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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</span>
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</span>
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</div>
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@ -266,12 +266,13 @@ The <a href='lifecycle.html'>lifecycle</a> of this function is <strong>stable</s
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<h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
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<pre class="examples"><span class='co'># transform existing disk zones to the `disk` class</span>
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<span class='fu'><a href='https://rdrr.io/r/base/library.html'>library</a></span>(<span class='no'>dplyr</span>)
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<span class='no'>df</span> <span class='kw'><-</span> <span class='fu'><a href='https://rdrr.io/r/base/data.frame.html'>data.frame</a></span>(<span class='kw'>microorganism</span> <span class='kw'>=</span> <span class='st'>"E. coli"</span>,
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<span class='kw'>AMP</span> <span class='kw'>=</span> <span class='fl'>20</span>,
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<span class='kw'>CIP</span> <span class='kw'>=</span> <span class='fl'>14</span>,
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<span class='kw'>GEN</span> <span class='kw'>=</span> <span class='fl'>18</span>,
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<span class='kw'>TOB</span> <span class='kw'>=</span> <span class='fl'>16</span>)
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<span class='no'>df</span> <span class='kw'><-</span> <span class='no'>df</span> <span class='kw'>%>%</span> <span class='fu'>mutate_at</span>(<span class='fu'>vars</span>(<span class='no'>AMP</span>:<span class='no'>TOB</span>, <span class='no'>as.disk</span>))
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<span class='no'>df</span> <span class='kw'><-</span> <span class='no'>df</span> <span class='kw'>%>%</span> <span class='fu'><a href='https://dplyr.tidyverse.org/reference/mutate_all.html'>mutate_at</a></span>(<span class='fu'><a href='https://dplyr.tidyverse.org/reference/vars.html'>vars</a></span>(<span class='no'>AMP</span>:<span class='no'>TOB</span>), <span class='no'>as.disk</span>)
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<span class='no'>df</span>
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<span class='co'># interpret disk values, see ?as.rsi</span>
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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">0.9.0.9026</span>
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<span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="Latest development version">0.9.0.9027</span>
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</span>
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</div>
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@ -39,12 +39,13 @@ On our website \url{https://msberends.gitlab.io/AMR} you can find \href{https://
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\examples{
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# transform existing disk zones to the `disk` class
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library(dplyr)
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df <- data.frame(microorganism = "E. coli",
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AMP = 20,
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CIP = 14,
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GEN = 18,
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TOB = 16)
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df <- df \%>\% mutate_at(vars(AMP:TOB, as.disk))
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df <- df \%>\% mutate_at(vars(AMP:TOB), as.disk)
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df
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# interpret disk values, see ?as.rsi
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