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sritchie73sritchie73
committedFeb 2, 2015
Removed template information from non-lesson files. Updated Index
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‎discussion.html

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<div class="span10 offset1">
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<h1 class="title">Lesson Title</h1>
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<h2 class="subtitle">Discussion</h2>
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<ul>
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<li><p>First point of general discussion.</p>
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<p>This may span several paragraphs.</p></li>
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<li><p>Second point of general discussion.</p></li>
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</ul>
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</div>
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</div>
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<div class="footer">

‎discussion.md

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title: Lesson Title
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subtitle: Discussion
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---
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* First point of general discussion.
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This may span several paragraphs.
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* Second point of general discussion.

‎index.html

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<head>
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<meta charset="utf-8">
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<meta name="generator" content="pandoc">
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<title>Software Carpentry: Lesson Title</title>
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<title>Software Carpentry: R for reproducible scientific analysis</title>
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<link rel="shortcut icon" type="image/x-icon" href="/favicon.ico" />
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<meta name="viewport" content="width=device-width, initial-scale=1.0" />
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<link rel="stylesheet" type="text/css" href="css/bootstrap/bootstrap.css" />
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</div>
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<div class="row-fluid">
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<div class="span10 offset1">
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<h1 class="title">Lesson Title</h1>
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<h1 class="title">R for reproducible scientific analysis</h1>
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<p>Paragraph of introductory material.</p>
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<p>Introduction to R for non-programmers using gapminder data.</p>
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<p>The goal of this lesson is to teach novice programmers to write modular code and best practices for using R for data analysis. R is commonly used in many scientific disciplines for statistical analysis and its array of third-party packages. We find that many scientists who come Software Carpentry workshops use R and want to learn more. The emphasis of these materials is to give attendees a strong foundation in the fundamentals of R, and to teach best practices for scientific computing: breaking down analyses into module units, task automation, and encapsulation.</p>
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<p>Note that this workshop will focus on teaching the fundamentals of the programming language R, and will not teach statistical analysis.</p>
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<p>A variety of third party packages are used throughout this workshop. These are not necessarily the best, nor are they comprehensive, but they are packages we find useful, and have been chosen for primarily for their usability.</p>
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<div id="prerequisites" class="prereq">
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<h2>Prerequisites</h2>
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<p>Have attended the Shell and Git sessions.</p>
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</div>
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<h2 id="topics">Topics</h2>
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<p>Note: these lessons are currently a work in progress. Please contact <a href="sritchie73@gmail.com">Scott Ritchie</a> for more information.</p>
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<ol style="list-style-type: decimal">
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<li><a href="01-one.html">Topic Title One</a></li>
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<li><a href="02-two.html">Topic Title Two</a></li>
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<li><a href="01-rstudio-intro.html">Introduction to RStudio and RStudio Projects</a></li>
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<li><a href="02-r-intro.html">Introduction to R</a></li>
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<li><a href="03-rw-data.html">Reading and writing data</a></li>
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<li><a href="04-seeking-help.html">Seeking help</a></li>
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<li><a href="05-data-structures.html">Data structures</a></li>
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<li><a href="06-data-subsetting.html">Subsetting data</a></li>
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<li><a href="07-vectorisation.html">Vectorisation</a> 8 <a href="08-control-flow.html">Control flow</a></li>
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<li><a href="09-functions.html">Functions</a></li>
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<li><a href="10-apply.html">Apply and task repitition</a></li>
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<li><a href="11-plotting.html">Plotting</a></li>
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</ol>
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<h2 id="other-resources">Other Resources</h2>
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<ul>

‎index.md

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---
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layout: page
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title: Lesson Title
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title: R for reproducible scientific analysis
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---
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Paragraph of introductory material.
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Introduction to R for non-programmers using gapminder data.
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The goal of this lesson is to teach novice programmers to write modular code
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and best practices for using R for data analysis. R is commonly used in many
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scientific disciplines for statistical analysis and its array of third-party
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packages. We find that many scientists who come Software Carpentry workshops
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use R and want to learn more. The emphasis of these materials is to give
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attendees a strong foundation in the fundamentals of R, and to teach best
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practices for scientific computing: breaking down analyses into module units,
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task automation, and encapsulation.
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Note that this workshop will focus on teaching the fundamentals of the
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programming language R, and will not teach statistical analysis.
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A variety of third party packages are used throughout this workshop. These
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are not necessarily the best, nor are they comprehensive, but they are
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packages we find useful, and have been chosen for primarily for their
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usability.
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> ## Prerequisites {.prereq}
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>
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## Topics
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1. [Topic Title One](01-one.html)
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2. [Topic Title Two](02-two.html)
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Note: these lessons are currently a work in progress. Please contact
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[Scott Ritchie](sritchie73@gmail.com) for more information.
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1. [Introduction to RStudio and RStudio Projects](01-rstudio-intro.html)
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2. [Introduction to R](02-r-intro.html)
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3. [Reading and writing data](03-rw-data.html)
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4. [Seeking help](04-seeking-help.html)
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5. [Data structures](05-data-structures.html)
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6. [Subsetting data](06-data-subsetting.html)
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7. [Vectorisation](07-vectorisation.html)
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8 [Control flow](08-control-flow.html)
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9. [Functions](09-functions.html)
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10. [Apply and task repitition](10-apply.html)
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11. [Plotting](11-plotting.html)
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## Other Resources
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‎instructors.html

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<li><p>FIXME</p></li>
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<li><p>FIXME</p></li>
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</ul>
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<h2 id="topic-title-one"><a href="01-one.html">Topic Title One</a></h2>
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<ul>
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<li><p>Point</p></li>
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<li><p>Point</p></li>
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<li><p>Be sure to describe what learners are expected to do during the topic (watch, type along, pair program, etc.)</p></li>
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</ul>
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<ol style="list-style-type: decimal">
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<li><p>Discussion of first challenge.</p></li>
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<li><p>Discussion of second challenge.</p></li>
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</ol>
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<h2 id="topic-title-two"><a href="02-two.html">Topic Title Two</a></h2>
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<ul>
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<li><p>Point</p></li>
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<li><p>Point</p></li>
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</ul>
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<ol style="list-style-type: decimal">
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<li><p>Discussion of first challenge.</p></li>
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<li><p>Discussion of second challenge.</p></li>
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</ol>
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<h2 id="seeking-help"><a href="03-seeking-help.html">Seeking help</a></h2>
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<h2 id="seeking-help"><a href="04-seeking-help.html">Seeking help</a></h2>
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<ul>
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<li><p>Be sure to actually go through and example of an R help page. Knowing how to read a help file is tremendously useful, and can be daunting if you've never seen one before.</p></li>
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<li><p>Be sure to show them CRAN Task views and go into one of the topics.</p></li>

‎instructors.md

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* FIXME
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## [Topic Title One](01-one.html)
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* Point
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* Point
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* Be sure to describe what learners are expected to do during the
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topic (watch, type along, pair program, etc.)
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1. Discussion of first challenge.
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2. Discussion of second challenge.
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## [Topic Title Two](02-two.html)
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* Point
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* Point
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1. Discussion of first challenge.
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2. Discussion of second challenge.
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## [Seeking help](03-seeking-help.html)
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## [Seeking help](04-seeking-help.html)
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* Be sure to actually go through and example of an R help page.
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Knowing how to read a help file is tremendously useful, and can

‎reference.html

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<div class="span10 offset1">
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<h1 class="title">Lesson Title</h1>
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<h2 class="subtitle">Reference</h2>
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<h2 id="topic-title-one"><a href="01-one.html">Topic Title One</a></h2>
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<p>...commands and examples...</p>
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<h2 id="topic-title-two"><a href="02-two.html">Topic Title Two</a></h2>
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<p>...commands and examples...</p>
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<h2 id="seeking-help"><a href="03-seeking-help.md">Seeking help</a></h2>
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<ul>
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<li><code>?</code> or <code>help()</code> to seek help for a function.</li>
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<li><a href="http://cran.at.r-project.org/web/views">CRAN Task Views</a>.</li>
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<li><a href="http://stackoverflow.com/">stackoverflow</a>.</li>
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</ul>
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<h2 id="glossary">Glossary</h2>
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<dl>
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<dt><span id="key-word-1">key word 1</span></dt>
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<dd>Definition of first term
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</dd>
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<dt><span id="key-word-2">key word 2</span></dt>
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<dd>Definition of second term
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</dd>
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</dl>
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</div>
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</div>
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<div class="footer">

‎reference.md

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title: Lesson Title
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subtitle: Reference
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---
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## [Topic Title One](01-one.html)
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...commands and examples...
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## [Topic Title Two](02-two.html)
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...commands and examples...
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## [Seeking help](03-seeking-help.md)
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- [CRAN Task Views](http://cran.at.r-project.org/web/views).
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- [stackoverflow](http://stackoverflow.com/).
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## Glossary
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key word 1
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: Definition of first term
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key word 2
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: Definition of second term

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