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52 changes: 26 additions & 26 deletions docs/presentations/singlepage/introToR_Session1.html
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<h1 class="title toc-ignore">Introduction to R - Session 1</h1>
<h3 class="subtitle">Rockefeller UniversityBioinformatics Resource
Center</h3>
<h3 class="subtitle">Bioinformatics Resource Center - Rockefeller
University</h3>
<h4 class="author"><a href="http://rockefelleruniversity.github.io/Intro_To_R_1Day/" class="uri">http://rockefelleruniversity.github.io/Intro_To_R_1Day/</a></h4>
<h4 class="author"><a href="mailto:brc@rockefeller.edu" class="email">brc@rockefeller.edu</a></h4>

Expand Down Expand Up @@ -3006,111 +3006,111 @@ <h2>Data from external sources</h2>
Gene_a
</td>
<td style="text-align:right;">
3.748015
6.114098
</td>
<td style="text-align:right;">
5.673906
3.651662
</td>
<td style="text-align:right;">
3.689673
5.511621
</td>
</tr>
<tr>
<td style="text-align:left;">
Gene_b
</td>
<td style="text-align:right;">
3.911023
4.789224
</td>
<td style="text-align:right;">
3.511461
4.942630
</td>
<td style="text-align:right;">
4.741946
2.725805
</td>
</tr>
<tr>
<td style="text-align:left;">
Gene_c
</td>
<td style="text-align:right;">
5.137442
4.064273
</td>
<td style="text-align:right;">
3.122917
3.848893
</td>
<td style="text-align:right;">
3.095816
4.002280
</td>
</tr>
<tr>
<td style="text-align:left;">
Gene_d
</td>
<td style="text-align:right;">
3.885018
4.536295
</td>
<td style="text-align:right;">
3.694877
5.752390
</td>
<td style="text-align:right;">
3.145632
3.339089
</td>
</tr>
<tr>
<td style="text-align:left;">
Gene_e
</td>
<td style="text-align:right;">
10.060803
10.515184
</td>
<td style="text-align:right;">
9.905741
10.765139
</td>
<td style="text-align:right;">
10.607116
10.102932
</td>
</tr>
<tr>
<td style="text-align:left;">
Gene_f
</td>
<td style="text-align:right;">
9.540471
8.991736
</td>
<td style="text-align:right;">
9.757122
9.843564
</td>
<td style="text-align:right;">
9.828682
11.131524
</td>
</tr>
<tr>
<td style="text-align:left;">
Gene_g
</td>
<td style="text-align:right;">
10.430112
10.599208
</td>
<td style="text-align:right;">
10.612781
10.197178
</td>
<td style="text-align:right;">
10.504008
11.135410
</td>
</tr>
<tr>
<td style="text-align:left;">
Gene_h
</td>
<td style="text-align:right;">
12.648962
10.055203
</td>
<td style="text-align:right;">
10.484571
8.363906
</td>
<td style="text-align:right;">
10.413815
9.181689
</td>
</tr>
</tbody>
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20 changes: 10 additions & 10 deletions docs/presentations/singlepage/introToR_Session2.html
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<meta name="author" content="brc@rockefeller.edu" />


<title>Introduction to R - Session 2</title>
<title>Introduction to R - Session 1</title>

<script>// Pandoc 2.9 adds attributes on both header and div. We remove the former (to
// be compatible with the behavior of Pandoc < 2.8).
Expand Down Expand Up @@ -1556,9 +1556,9 @@



<h1 class="title toc-ignore">Introduction to R - Session 2</h1>
<h3 class="subtitle">Rockefeller UniversityBioinformatics Resource
Center</h3>
<h1 class="title toc-ignore">Introduction to R - Session 1</h1>
<h3 class="subtitle">Bioinformatics Resource Center - Rockefeller
University</h3>
<h4 class="author"><a href="http://rockefelleruniversity.github.io/Intro_To_R_1Day/" class="uri">http://rockefelleruniversity.github.io/Intro_To_R_1Day/</a></h4>
<h4 class="author"><a href="mailto:brc@rockefeller.edu" class="email">brc@rockefeller.edu</a></h4>

Expand Down Expand Up @@ -2390,8 +2390,8 @@ <h2>Custom function example</h2>
<span id="cb156-10"><a href="#cb156-10" aria-hidden="true" tabindex="-1"></a>A <span class="ot">&lt;-</span> <span class="fu">rnorm</span>(<span class="dv">20</span>)</span>
<span id="cb156-11"><a href="#cb156-11" aria-hidden="true" tabindex="-1"></a></span>
<span id="cb156-12"><a href="#cb156-12" aria-hidden="true" tabindex="-1"></a><span class="fu">my_zscore</span>(<span class="at">my_number=</span>A[<span class="dv">1</span>], <span class="at">my_vector=</span>A)</span></code></pre></div>
<pre><code>## Mean is -0.339070410259268</code></pre>
<pre><code>## [1] -0.9170779</code></pre>
<pre><code>## Mean is -0.0201830063325983</code></pre>
<pre><code>## [1] -0.2216552</code></pre>
</div>
<div id="debugging-functions" class="section level2">
<h2>Debugging functions</h2>
Expand All @@ -2406,10 +2406,10 @@ <h2>Debugging functions</h2>
<h2>Custom functions and apply</h2>
<p>These custom functions can also be utilized with apply.</p>
<div class="sourceCode" id="cb160"><pre class="sourceCode r"><code class="sourceCode r"><span id="cb160-1"><a href="#cb160-1" aria-hidden="true" tabindex="-1"></a><span class="fu">sapply</span>(A, my_zscore, <span class="at">my_vector=</span>A)</span></code></pre></div>
<pre><code>## [1] -0.91707786 -1.27881585 -0.09207309 0.27502420 -0.21778697 -1.07329500
## [7] -0.01765323 0.16428822 1.18594526 -0.95894849 -0.02403633 -1.81818368
## [13] -0.44579057 0.82992612 1.94427763 -0.03240710 -0.83499881 0.49418623
## [19] 1.38393290 1.43348640</code></pre>
<pre><code>## [1] -0.22165519 -0.02666109 -0.23117481 -1.12656796 -1.23976279 0.40392274
## [7] 1.01395924 -1.76383043 1.65926044 1.38274371 0.19660351 -1.77719943
## [13] 1.29564823 -0.72245280 0.53405124 0.97852803 -0.58430227 0.03153533
## [19] 0.34436005 -0.14700574</code></pre>
</div>
</div>
<div id="getting-additional-libraries" class="section level1">
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# Introduction to R - Session 1
]
.subtitle[
## Rockefeller UniversityBioinformatics Resource Center
## Bioinformatics Resource Center - Rockefeller University
]
.author[
### <a href="http://rockefelleruniversity.github.io/Intro_To_R_1Day/" class="uri">http://rockefelleruniversity.github.io/Intro_To_R_1Day/</a>
Expand Down Expand Up @@ -2561,51 +2561,51 @@
&lt;tbody&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_a &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.677695 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 2.407734 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.688860 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.549640 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.055915 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.473899 &lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_b &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.206249 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.540387 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.031366 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.061181 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.567089 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 2.627906 &lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_c &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.369869 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.892023 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.488333 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.768581 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.002469 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.166941 &lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_d &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 2.946114 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.191295 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.486030 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.020130 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.633432 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.570594 &lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_e &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.616482 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.044152 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.989242 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.302783 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.623047 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.761798 &lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_f &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.859909 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.061845 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.814015 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.505908 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.555179 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.795322 &lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_g &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.477750 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.645196 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.669200 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.919977 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.395819 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.455944 &lt;/td&gt;
&lt;/tr&gt;
&lt;tr&gt;
&lt;td style="text-align:left;"&gt; Gene_h &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.291157 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.920510 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.632775 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.139262 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.447773 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.196103 &lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
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18 changes: 9 additions & 9 deletions docs/presentations/slides/introToR_Session2.html
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@@ -1,7 +1,7 @@
<!DOCTYPE html>
<html lang="" xml:lang="">
<head>
<title>Introduction to R - Session 2</title>
<title>Introduction to R - Session 1</title>
<meta charset="utf-8" />
<meta name="author" content="http://rockefelleruniversity.github.io/Intro_To_R_1Day/" />
<meta name="author" content="brc@rockefeller.edu" />
Expand All @@ -13,10 +13,10 @@
class: center, middle, inverse, title-slide

.title[
# Introduction to R - Session 2
# Introduction to R - Session 1
]
.subtitle[
## Rockefeller UniversityBioinformatics Resource Center
## Bioinformatics Resource Center - Rockefeller University
]
.author[
### <a href="http://rockefelleruniversity.github.io/Intro_To_R_1Day/" class="uri">http://rockefelleruniversity.github.io/Intro_To_R_1Day/</a>
Expand Down Expand Up @@ -1388,11 +1388,11 @@
```

```
## Mean is 0.149024753492524
## Mean is -0.0305961131565969
```

```
## [1] 0.5638451
## [1] -0.9496808
```

---
Expand All @@ -1417,10 +1417,10 @@
```

```
## [1] 0.56384513 -0.07913317 -0.32825886 -0.14149073 0.40815142 -1.96228103
## [7] 1.35650407 -0.04022448 0.84512579 -1.10856172 0.84198288 0.15306034
## [13] 0.89895322 0.90852486 -0.67683044 0.32560389 -1.05653992 -0.52221068
## [19] 1.58908816 -1.97530874
## [1] -0.94968075 -0.78305717 1.05352700 0.06490175 -0.75293440 -0.23613690
## [7] 1.94375837 -0.03252430 -1.36864893 -0.98164156 -1.22428793 1.04927928
## [13] -1.10757287 0.92592627 -0.88102207 -0.19882759 0.24303620 0.85178392
## [19] 1.24578852 1.13833316
```


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