mirror of
https://github.com/msberends/AMR.git
synced 2025-07-27 17:07:54 +02:00
Built site for AMR: 1.8.2.9019@e5e6d22
This commit is contained in:
github-actions
@ -10,7 +10,7 @@
|
||||
|
||||
<a class="navbar-brand me-2" href="../index.html">AMR (for R)</a>
|
||||
|
||||
<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.2.9018</small>
|
||||
<small class="nav-text text-muted me-auto" data-bs-toggle="tooltip" data-bs-placement="bottom" title="">1.8.2.9019</small>
|
||||
|
||||
|
||||
<button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbar" aria-controls="navbar" aria-expanded="false" aria-label="Toggle navigation">
|
||||
@ -195,11 +195,10 @@
|
||||
<div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span><span class="va">x</span> <span class="op"><-</span> <span class="fu"><a href="random.html">random_mic</a></span><span class="op">(</span><span class="fl">10</span><span class="op">)</span></span></span>
|
||||
<span class="r-in"><span><span class="va">x</span></span></span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> Class <mic></span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [1] 0.25 32 0.01 32 0.01 1 0.125 >=256 <=0.002</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [10] 128 </span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [1] 0.25 0.001 0.005 0.025 0.01 0.005 0.25 256 0.005 256 </span>
|
||||
<span class="r-in"><span><span class="fu">mean_amr_distance</span><span class="op">(</span><span class="va">x</span><span class="op">)</span></span></span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [1] -0.28698184 0.84500052 -1.03794802 0.84500052 -1.03794802 0.03644169</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [7] -0.44869360 1.33013581 -1.41343111 1.16842405</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [1] 0.1992569 -1.0346858 -0.6750067 -0.3153276 -0.5201013 -0.6750067</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [7] 0.1992569 1.7483105 -0.6750067 1.7483105</span>
|
||||
<span class="r-in"><span></span></span>
|
||||
<span class="r-in"><span><span class="va">y</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a></span><span class="op">(</span></span></span>
|
||||
<span class="r-in"><span> id <span class="op">=</span> <span class="va">LETTERS</span><span class="op">[</span><span class="fl">1</span><span class="op">:</span><span class="fl">10</span><span class="op">]</span>,</span></span>
|
||||
@ -210,37 +209,37 @@
|
||||
<span class="r-in"><span><span class="op">)</span></span></span>
|
||||
<span class="r-in"><span><span class="va">y</span></span></span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> id amox cipr gent tobr</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 1 A 4 <=0.125 2 1</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 2 B 16 0.5 0.25 >=4</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 3 C 16 >=1 16 0.5</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 4 D 16 <=0.125 16 1</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 5 E 4 0.5 8 2</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 6 F 32 0.5 0.25 0.5</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 7 G <=2 <=0.125 0.5 2</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 8 H 32 <=0.125 8 0.5</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 9 I 16 <=0.125 16 2</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 10 J 16 >=1 0.5 0.5</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 1 A 32 2 <=1 0.25</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 2 B 64 2 4 8</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 3 C 4 0.25 <=1 0.5</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 4 D 8 2 2 8</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 5 E 16 2 8 0.25</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 6 F 8 0.5 <=1 1</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 7 G 64 0.5 <=1 8</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 8 H 16 <=0.125 8 0.5</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 9 I 16 0.25 2 0.25</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 10 J 4 >=4 8 4</span>
|
||||
<span class="r-in"><span><span class="fu">mean_amr_distance</span><span class="op">(</span><span class="va">y</span><span class="op">)</span></span></span>
|
||||
<span class="r-msg co"><span class="r-pr">#></span> ℹ Calculating mean AMR distance based on columns "amox", "cipr", "gent",</span>
|
||||
<span class="r-msg co"><span class="r-pr">#></span> "id" and "tobr"</span>
|
||||
<span class="r-wrn co"><span class="r-pr">#></span> <span class="warning">Warning: </span>NAs introduced by coercion</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [1] -0.55656226 0.35659439 0.44544165 0.10294421 0.24387145 -0.14027373</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [7] -0.70751904 -0.03633100 0.33011266 -0.03827833</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [1] -0.1221358 0.9889067 -0.9671616 0.2844407 0.2660982 -0.5349017</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> [7] 0.3214630 -0.2081835 -0.5481505 0.5196245</span>
|
||||
<span class="r-in"><span><span class="va">y</span><span class="op">$</span><span class="va">amr_distance</span> <span class="op"><-</span> <span class="fu">mean_amr_distance</span><span class="op">(</span><span class="va">y</span>, <span class="fu">where</span><span class="op">(</span><span class="va">is.mic</span><span class="op">)</span><span class="op">)</span></span></span>
|
||||
<span class="r-msg co"><span class="r-pr">#></span> ℹ Calculating mean AMR distance based on columns "amox", "cipr", "gent" and</span>
|
||||
<span class="r-msg co"><span class="r-pr">#></span> "tobr"</span>
|
||||
<span class="r-in"><span><span class="va">y</span><span class="op">[</span><span class="fu"><a href="https://rdrr.io/r/base/order.html" class="external-link">order</a></span><span class="op">(</span><span class="va">y</span><span class="op">$</span><span class="va">amr_distance</span><span class="op">)</span>, <span class="op">]</span></span></span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> id amox cipr gent tobr amr_distance</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 7 G <=2 <=0.125 0.5 2 -0.70751904</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 1 A 4 <=0.125 2 1 -0.55656226</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 6 F 32 0.5 0.25 0.5 -0.14027373</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 10 J 16 >=1 0.5 0.5 -0.03827833</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 8 H 32 <=0.125 8 0.5 -0.03633100</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 4 D 16 <=0.125 16 1 0.10294421</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 5 E 4 0.5 8 2 0.24387145</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 9 I 16 <=0.125 16 2 0.33011266</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 2 B 16 0.5 0.25 >=4 0.35659439</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 3 C 16 >=1 16 0.5 0.44544165</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 3 C 4 0.25 <=1 0.5 -0.9671616</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 9 I 16 0.25 2 0.25 -0.5481505</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 6 F 8 0.5 <=1 1 -0.5349017</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 8 H 16 <=0.125 8 0.5 -0.2081835</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 1 A 32 2 <=1 0.25 -0.1221358</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 5 E 16 2 8 0.25 0.2660982</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 4 D 8 2 2 8 0.2844407</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 7 G 64 0.5 <=1 8 0.3214630</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 10 J 4 >=4 8 4 0.5196245</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 2 B 64 2 4 8 0.9889067</span>
|
||||
<span class="r-in"><span></span></span>
|
||||
<span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="st"><a href="https://dplyr.tidyverse.org" class="external-link">"dplyr"</a></span><span class="op">)</span><span class="op">)</span> <span class="op">{</span></span></span>
|
||||
<span class="r-in"><span> <span class="va">y</span> <span class="op"><a href="https://magrittr.tidyverse.org/reference/pipe.html" class="external-link">%>%</a></span></span></span>
|
||||
@ -253,16 +252,16 @@
|
||||
<span class="r-msg co"><span class="r-pr">#></span> ℹ Calculating mean AMR distance based on columns "amox", "cipr", "gent" and</span>
|
||||
<span class="r-msg co"><span class="r-pr">#></span> "tobr"</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> id amox cipr gent tobr amr_distance check_id_C</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 1 C 16 >=1 16 0.5 0.44544165 0.00000000</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 2 B 16 0.5 0.25 >=4 0.35659439 0.08884727</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 3 I 16 <=0.125 16 2 0.33011266 0.11532899</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 4 E 4 0.5 8 2 0.24387145 0.20157020</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 5 D 16 <=0.125 16 1 0.10294421 0.34249744</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 6 H 32 <=0.125 8 0.5 -0.03633100 0.48177265</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 7 J 16 >=1 0.5 0.5 -0.03827833 0.48371999</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 8 F 32 0.5 0.25 0.5 -0.14027373 0.58571538</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 9 A 4 <=0.125 2 1 -0.55656226 1.00200391</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 10 G <=2 <=0.125 0.5 2 -0.70751904 1.15296069</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 1 C 4 0.25 <=1 0.5 -0.9671616 0.0000000</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 2 I 16 0.25 2 0.25 -0.5481505 0.4190111</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 3 F 8 0.5 <=1 1 -0.5349017 0.4322599</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 4 H 16 <=0.125 8 0.5 -0.2081835 0.7589781</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 5 A 32 2 <=1 0.25 -0.1221358 0.8450258</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 6 E 16 2 8 0.25 0.2660982 1.2332598</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 7 D 8 2 2 8 0.2844407 1.2516023</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 8 G 64 0.5 <=1 8 0.3214630 1.2886246</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 9 J 4 >=4 8 4 0.5196245 1.4867861</span>
|
||||
<span class="r-out co"><span class="r-pr">#></span> 10 B 64 2 4 8 0.9889067 1.9560683</span>
|
||||
<span class="r-in"><span><span class="kw">if</span> <span class="op">(</span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">require</a></span><span class="op">(</span><span class="st"><a href="https://dplyr.tidyverse.org" class="external-link">"dplyr"</a></span><span class="op">)</span><span class="op">)</span> <span class="op">{</span></span></span>
|
||||
<span class="r-in"><span> <span class="co"># support for groups</span></span></span>
|
||||
<span class="r-in"><span> <span class="va">example_isolates</span> <span class="op"><a href="https://magrittr.tidyverse.org/reference/pipe.html" class="external-link">%>%</a></span></span></span>
|
||||
|
||||
Reference in New Issue
Block a user