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Expand Up @@ -14,7 +14,6 @@

<title>Introduction to R</title>

<script src="site_libs/header-attrs-2.7/header-attrs.js"></script>
<script src="site_libs/jquery-1.11.3/jquery.min.js"></script>
<meta name="viewport" content="width=device-width, initial-scale=1" />
<link href="site_libs/bootstrap-3.3.5/css/cosmo.min.css" rel="stylesheet" />
Expand Down Expand Up @@ -479,8 +478,8 @@ <h2>Course Overview</h2>
<p><br></p>
<div id="course-integrity" class="section level3">
<h3>Course Integrity</h3>
<p><strong>This course is compiled automatically on <em>2021-02-23</em> </strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3AR-CMD-check-bioc"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/R-CMD-check-bioc/badge.svg"></a></p>
<p><strong>The course is tested and available on MacOS, Windows and Ubuntu Linux for R 4.0</strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3AR-CMD-check"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/R-CMD-check/badge.svg"></a></p>
<p><strong>This course is compiled automatically on <em>2021-02-23</em> </strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3compilation-check"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/compilation-check/badge.svg"></a></p>
<p><strong>The course is tested and available on MacOS, Windows and Ubuntu Linux for R version 4.0.3 (2020-10-10)</strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3AOS-check"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/OS-check/badge.svg"></a></p>
<p><br> <br></p>
</div>
<div id="overview" class="section level3">
Expand All @@ -502,10 +501,10 @@ <h4>Install R</h4>
<p>R can be installed from the R-project website.</p>
<p>The R website can be found here <a href="http://www.r-project.org/" class="uri">http://www.r-project.org/</a>.</p>
<p>The download links and associated installation instructions for multiple platforms can be found below provided by Revolution Analytics. <a href="https://cran.revolutionanalytics.com" class="uri">https://cran.revolutionanalytics.com</a></p>
<p>Direct downloads for main platforms of R 4.0 can be found below</p>
<p>We recommend installing R 4.0.3 as this is the version used to compile the course. Direct downloads for R 4.0.3 for the main platforms can be found below:</p>
<ul>
<li><a href="https://cran.revolutionanalytics.com/bin/macosx/R-4.0.0.pkg">Mac</a></li>
<li><a href="https://cran.revolutionanalytics.com/bin/windows/base/R-4.0.0-win.exe">Windows</a></li>
<li><a href="https://cran.revolutionanalytics.com/bin/macosx/R-4.0.3.pkg">Mac</a></li>
<li><a href="https://cran.revolutionanalytics.com/bin/windows/base/old/4.0.3/R-4.0.3-win.exe">Windows</a></li>
<li><a href="https://cran.revolutionanalytics.com">Linux platforms</a></li>
</ul>
<p><br></p>
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<title>introToR_Session1.utf8</title>
<meta charset="utf-8" />
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
<script src="libs/header-attrs-2.7/header-attrs.js"></script>
<link href="libs/remark-css-0.0.1/default.css" rel="stylesheet" />
<link rel="stylesheet" href="metropolisCustom.css" type="text/css" />
<link rel="stylesheet" href="metropolis-fontsCustom.css" type="text/css" />
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&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; 3.557025 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.128835 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.590162 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 2.646226 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.547138 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.833245 &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; 5.341632 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 6.185260 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 2.579143 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.731828 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.864441 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.781426 &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; 5.355578 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.522542 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.447184 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.653688 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.789682 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.969985 &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; 3.461560 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.807955 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.062500 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.410019 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.925288 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.445745 &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; 10.283021 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.665671 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.371347 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.532351 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.310967 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.177334 &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; 11.310248 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.081716 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.252667 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.283086 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.542090 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.518443 &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; 9.272982 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.572193 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.753310 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.752683 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.341602 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.327019 &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; 9.137036 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.267810 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.977415 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.010334 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.948372 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.467797 &lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
Expand Down Expand Up @@ -2963,9 +2962,6 @@
## Answers to exercise

Answers can be found [here](../../exercises/answers/DataInputOutput_answers.html)



</textarea>
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<title>introToR_Session2.utf8</title>
<meta charset="utf-8" />
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
<script src="libs/header-attrs-2.7/header-attrs.js"></script>
<link href="libs/remark-css-0.0.1/default.css" rel="stylesheet" />
<link rel="stylesheet" href="metropolisCustom.css" type="text/css" />
<link rel="stylesheet" href="metropolis-fontsCustom.css" type="text/css" />
Expand Down Expand Up @@ -1384,11 +1383,11 @@
```

```
## Mean is -0.0701517900525497
## Mean is 0.290551949290036
```

```
## [1] 0.4645759
## [1] -0.4466291
```

---
Expand All @@ -1413,10 +1412,10 @@
```

```
## [1] 0.46457585 0.65236319 1.33243310 -1.69096325 0.19743968 -2.01103286
## [7] -0.13352096 -1.42257553 -0.14270982 -0.21550430 -0.11718848 0.30982831
## [13] -1.48238035 0.06916913 0.18452349 1.66100742 0.65361017 0.06632491
## [19] 0.23090587 1.39369443
## [1] -0.4466291 1.8349212 0.2935585 -0.5377074 0.4365208 1.4010397
## [7] 0.3640984 0.1074542 -1.9522542 -1.0661325 0.7347903 0.7422989
## [13] 0.3919661 -1.1863846 0.7793160 -1.1099035 0.1063682 1.1170540
## [19] -1.1493276 -0.8610472
```


Expand Down Expand Up @@ -1575,9 +1574,6 @@
- Local friendly bioinformaticians and computational biologists.
- [Stackoverflow](http://stackoverflow.com/)
- [R-help](https://stat.ethz.ch/mailman/listinfo/r-help)



</textarea>
<style data-target="print-only">@media screen {.remark-slide-container{display:block;}.remark-slide-scaler{box-shadow:none;}}</style>
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<title>Introduction to R</title>

<script src="site_libs/header-attrs-2.7/header-attrs.js"></script>
<script src="site_libs/jquery-1.11.3/jquery.min.js"></script>
<meta name="viewport" content="width=device-width, initial-scale=1" />
<link href="site_libs/bootstrap-3.3.5/css/cosmo.min.css" rel="stylesheet" />
Expand Down Expand Up @@ -479,8 +478,8 @@ <h2>Course Overview</h2>
<p><br></p>
<div id="course-integrity" class="section level3">
<h3>Course Integrity</h3>
<p><strong>This course is compiled automatically on <em>2021-02-23</em> </strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3AR-CMD-check-bioc"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/R-CMD-check-bioc/badge.svg"></a></p>
<p><strong>The course is tested and available on MacOS, Windows and Ubuntu Linux for R 4.0</strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3AR-CMD-check"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/R-CMD-check/badge.svg"></a></p>
<p><strong>This course is compiled automatically on <em>2021-02-23</em> </strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3compilation-check"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/compilation-check/badge.svg"></a></p>
<p><strong>The course is tested and available on MacOS, Windows and Ubuntu Linux for R version 4.0.3 (2020-10-10)</strong> <br> <a href="https://github.com/RockefellerUniversity/Intro_To_R_1Day/actions?query=workflow%3AOS-check"><img src="https://github.com/RockefellerUniversity/Intro_To_R_1Day/workflows/OS-check/badge.svg"></a></p>
<p><br> <br></p>
</div>
<div id="overview" class="section level3">
Expand All @@ -502,10 +501,10 @@ <h4>Install R</h4>
<p>R can be installed from the R-project website.</p>
<p>The R website can be found here <a href="http://www.r-project.org/" class="uri">http://www.r-project.org/</a>.</p>
<p>The download links and associated installation instructions for multiple platforms can be found below provided by Revolution Analytics. <a href="https://cran.revolutionanalytics.com" class="uri">https://cran.revolutionanalytics.com</a></p>
<p>Direct downloads for main platforms of R 4.0 can be found below</p>
<p>We recommend installing R 4.0.3 as this is the version used to compile the course. Direct downloads for R 4.0.3 for the main platforms can be found below:</p>
<ul>
<li><a href="https://cran.revolutionanalytics.com/bin/macosx/R-4.0.0.pkg">Mac</a></li>
<li><a href="https://cran.revolutionanalytics.com/bin/windows/base/R-4.0.0-win.exe">Windows</a></li>
<li><a href="https://cran.revolutionanalytics.com/bin/macosx/R-4.0.3.pkg">Mac</a></li>
<li><a href="https://cran.revolutionanalytics.com/bin/windows/base/old/4.0.3/R-4.0.3-win.exe">Windows</a></li>
<li><a href="https://cran.revolutionanalytics.com">Linux platforms</a></li>
</ul>
<p><br></p>
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<title>introToR_Session1.utf8</title>
<meta charset="utf-8" />
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
<script src="libs/header-attrs-2.7/header-attrs.js"></script>
<link href="libs/remark-css-0.0.1/default.css" rel="stylesheet" />
<link rel="stylesheet" href="metropolisCustom.css" type="text/css" />
<link rel="stylesheet" href="metropolis-fontsCustom.css" type="text/css" />
Expand Down Expand Up @@ -2560,51 +2559,51 @@
&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; 3.557025 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.128835 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.590162 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 2.646226 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.547138 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.833245 &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; 5.341632 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 6.185260 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 2.579143 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.731828 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.864441 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.781426 &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; 5.355578 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.522542 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 4.447184 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.653688 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.789682 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.969985 &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; 3.461560 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.807955 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.062500 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.410019 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 5.925288 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 3.445745 &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; 10.283021 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.665671 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.371347 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.532351 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.310967 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.177334 &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; 11.310248 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.081716 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.252667 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.283086 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.542090 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.518443 &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; 9.272982 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.572193 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.753310 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 10.752683 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.341602 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 8.327019 &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; 9.137036 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.267810 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.977415 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 9.010334 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.948372 &lt;/td&gt;
&lt;td style="text-align:right;"&gt; 11.467797 &lt;/td&gt;
&lt;/tr&gt;
&lt;/tbody&gt;
&lt;/table&gt;
Expand Down Expand Up @@ -2963,9 +2962,6 @@
## Answers to exercise

Answers can be found [here](../../exercises/answers/DataInputOutput_answers.html)



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16 changes: 6 additions & 10 deletions r_course/presentations/slides/introToR_Session2.html
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<title>introToR_Session2.utf8</title>
<meta charset="utf-8" />
<meta name="author" content="Rockefeller University, Bioinformatics Resource Centre" />
<script src="libs/header-attrs-2.7/header-attrs.js"></script>
<link href="libs/remark-css-0.0.1/default.css" rel="stylesheet" />
<link rel="stylesheet" href="metropolisCustom.css" type="text/css" />
<link rel="stylesheet" href="metropolis-fontsCustom.css" type="text/css" />
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```

```
## Mean is -0.0701517900525497
## Mean is 0.290551949290036
```

```
## [1] 0.4645759
## [1] -0.4466291
```

---
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```

```
## [1] 0.46457585 0.65236319 1.33243310 -1.69096325 0.19743968 -2.01103286
## [7] -0.13352096 -1.42257553 -0.14270982 -0.21550430 -0.11718848 0.30982831
## [13] -1.48238035 0.06916913 0.18452349 1.66100742 0.65361017 0.06632491
## [19] 0.23090587 1.39369443
## [1] -0.4466291 1.8349212 0.2935585 -0.5377074 0.4365208 1.4010397
## [7] 0.3640984 0.1074542 -1.9522542 -1.0661325 0.7347903 0.7422989
## [13] 0.3919661 -1.1863846 0.7793160 -1.1099035 0.1063682 1.1170540
## [19] -1.1493276 -0.8610472
```


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- Local friendly bioinformaticians and computational biologists.
- [Stackoverflow](http://stackoverflow.com/)
- [R-help](https://stat.ethz.ch/mailman/listinfo/r-help)



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