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benwhalley committed Jan 29, 2018
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71 changes: 32 additions & 39 deletions docs/a-generalised-approach.html
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65 changes: 29 additions & 36 deletions docs/anova-cookbook.html
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<li class="part"><span><b>I Getting started</b></span></li>
<li class="chapter" data-level="" data-path="introduction.html"><a href="introduction.html"><i class="fa fa-check"></i>Introduction</a></li>
<li class="chapter" data-level="1" data-path="r-basics.html"><a href="r-basics.html"><i class="fa fa-check"></i><b>1</b> Working with R</a><ul>
<li class="chapter" data-level="" data-path="r-basics.html"><a href="r-basics.html#start-here"><i class="fa fa-check"></i>Workflow</a></li>
<li class="chapter" data-level="" data-path="installation-intro.html"><a href="installation-intro.html"><i class="fa fa-check"></i>Installation</a><ul>
<li class="chapter" data-level="" data-path="installation-intro.html"><a href="installation-intro.html#start-here"><i class="fa fa-check"></i>Workflow</a></li>
</ul></li>
<li class="chapter" data-level="" data-path="rmarkdown.html"><a href="rmarkdown.html"><i class="fa fa-check"></i>RMarkdown</a></li>
<li class="chapter" data-level="" data-path="rstudio.html"><a href="rstudio.html"><i class="fa fa-check"></i>RStudio</a></li>
<li class="chapter" data-level="" data-path="first-commands.html"><a href="first-commands.html"><i class="fa fa-check"></i>First commands</a></li>
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<li class="chapter" data-level="" data-path="vectors-and-lists.html"><a href="vectors-and-lists.html#vector"><i class="fa fa-check"></i>Vectors</a></li>
<li class="chapter" data-level="" data-path="vectors-and-lists.html"><a href="vectors-and-lists.html#access-vector-elements"><i class="fa fa-check"></i>Accessing elements</a></li>
<li class="chapter" data-level="" data-path="vectors-and-lists.html"><a href="vectors-and-lists.html#selecting-more-than-one-element"><i class="fa fa-check"></i>Selecting more than one element</a></li>
<li class="chapter" data-level="" data-path="vectors-and-lists.html"><a href="vectors-and-lists.html#making-sequences"><i class="fa fa-check"></i>Making and slicing with sequences</a></li>
<li class="chapter" data-level="" data-path="vectors-and-lists.html"><a href="vectors-and-lists.html#conditional-slices"><i class="fa fa-check"></i>Conditional slicing</a></li>
</ul></li>
<li class="chapter" data-level="" data-path="processing-vectors.html"><a href="processing-vectors.html"><i class="fa fa-check"></i>Processing vectors</a><ul>
<li class="chapter" data-level="" data-path="processing-vectors.html"><a href="processing-vectors.html#making-new-vectors"><i class="fa fa-check"></i>Making new vectors</a></li>
<li class="chapter" data-level="" data-path="processing-vectors.html"><a href="processing-vectors.html#making-up-data-new-vectors"><i class="fa fa-check"></i>Making up data (new vectors)</a></li>
</ul></li>
<li class="chapter" data-level="" data-path="functions-to-learn-now.html"><a href="functions-to-learn-now.html"><i class="fa fa-check"></i>Functions to learn now</a></li>
<li class="chapter" data-level="" data-path="lists.html"><a href="lists.html"><i class="fa fa-check"></i>Lists</a></li>
<li class="chapter" data-level="" data-path="packages.html"><a href="packages.html"><i class="fa fa-check"></i>Packages</a></li>
</ul></li>
<li class="part"><span><b>II Data</b></span></li>
<li class="chapter" data-level="2" data-path="datasets-dataframes.html"><a href="datasets-dataframes.html"><i class="fa fa-check"></i><b>2</b> Datasets and dataframes</a><ul>
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<li class="chapter" data-level="" data-path="code-reuse.html"><a href="code-reuse.html#helper-functions"><i class="fa fa-check"></i>Writing helper functions</a></li>
<li><a href="code-reuse.html#ggplot-reuse">Re-using code with <code>ggplot</code></a></li>
</ul></li>
<li class="chapter" data-level="" data-path="table1.html"><a href="table1.html"><i class="fa fa-check"></i>“Table 1”</a></li>
</ul></li>
<li class="chapter" data-level="18" data-path="quirks.html"><a href="quirks.html"><i class="fa fa-check"></i><b>18</b> Dealing with quirks of R</a><ul>
<li class="chapter" data-level="" data-path="rownames.html"><a href="rownames.html"><i class="fa fa-check"></i>Rownames are evil</a></li>
<li class="chapter" data-level="" data-path="string-handling.html"><a href="string-handling.html"><i class="fa fa-check"></i>Working with character strings</a><ul>
<li class="chapter" data-level="18.0.1" data-path="string-handling.html"><a href="string-handling.html#searching-and-replacing"><i class="fa fa-check"></i><b>18.0.1</b> Searching and replacing</a></li>
<li><a href="processing-vectors.html#paste">Using <code>paste</code> to make labels</a></li>
<li><a href="string-handling.html#separate-and-extract">Fixing up <code>variable</code> after melting</a></li>
</ul></li>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html"><i class="fa fa-check"></i>Colours</a><ul>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html#picking-colours"><i class="fa fa-check"></i>Picking colours for plots</a></li>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html#named-colours"><i class="fa fa-check"></i>Named colours in R</a></li>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html#color-brewer"><i class="fa fa-check"></i>ColourBrewer with ggplot</a></li>
</ul></li>
</ul></li>
<li class="chapter" data-level="19" data-path="getting-help.html"><a href="getting-help.html"><i class="fa fa-check"></i><b>19</b> Getting help</a><ul>
<li class="chapter" data-level="" data-path="getting-help.html"><a href="getting-help.html#backtick-location"><i class="fa fa-check"></i>Finding the backtick on your keyboard</a></li>
</ul></li>
<li class="part"><span><b>V Explanations</b></span></li>
<li class="chapter" data-level="18" data-path="intervals.html"><a href="intervals.html"><i class="fa fa-check"></i><b>18</b> Confidence and Intervals</a><ul>
<li class="chapter" data-level="20" data-path="intervals.html"><a href="intervals.html"><i class="fa fa-check"></i><b>20</b> Confidence and Intervals</a><ul>
<li class="chapter" data-level="" data-path="intervals.html"><a href="intervals.html#the-problem-with-confidence-intervals"><i class="fa fa-check"></i>The problem with confidence intervals</a></li>
<li class="chapter" data-level="" data-path="intervals.html"><a href="intervals.html#forgetting-that-the-ci-depends-on-sample-size."><i class="fa fa-check"></i>Forgetting that the CI depends on sample size.</a></li>
</ul></li>
<li class="chapter" data-level="19" data-path="multiple-comparisons.html"><a href="multiple-comparisons.html"><i class="fa fa-check"></i><b>19</b> Multiple comparisons</a><ul>
<li class="chapter" data-level="21" data-path="multiple-comparisons.html"><a href="multiple-comparisons.html"><i class="fa fa-check"></i><b>21</b> Multiple comparisons</a><ul>
<li><a href="multiple-comparisons.html#p-values-and-false-discoveries"><em>p</em> values and ‘false discoveries’</a></li>
<li class="chapter" data-level="" data-path="multiple-comparisons.html"><a href="multiple-comparisons.html#multiple-tests-on-the-same-data"><i class="fa fa-check"></i>Multiple tests on the same data</a></li>
<li class="chapter" data-level="" data-path="multiple-comparisons.html"><a href="multiple-comparisons.html#what-to-do-about-it"><i class="fa fa-check"></i>What to do about it?</a></li>
<li class="chapter" data-level="" data-path="multiple-comparisons.html"><a href="multiple-comparisons.html#contrasts-examples"><i class="fa fa-check"></i>Practical examples</a></li>
</ul></li>
<li class="chapter" data-level="20" data-path="clustering.html"><a href="clustering.html"><i class="fa fa-check"></i><b>20</b> Non-independence</a></li>
<li class="chapter" data-level="21" data-path="fixed-or-random.html"><a href="fixed-or-random.html"><i class="fa fa-check"></i><b>21</b> Fixed and random effects</a></li>
<li class="chapter" data-level="22" data-path="link-functions.html"><a href="link-functions.html"><i class="fa fa-check"></i><b>22</b> Link functions</a><ul>
<li class="chapter" data-level="22" data-path="clustering.html"><a href="clustering.html"><i class="fa fa-check"></i><b>22</b> Non-independence</a></li>
<li class="chapter" data-level="23" data-path="fixed-or-random.html"><a href="fixed-or-random.html"><i class="fa fa-check"></i><b>23</b> Fixed and random effects</a></li>
<li class="chapter" data-level="24" data-path="link-functions.html"><a href="link-functions.html"><i class="fa fa-check"></i><b>24</b> Link functions</a><ul>
<li class="chapter" data-level="" data-path="link-functions.html"><a href="link-functions.html#logistic-link-function"><i class="fa fa-check"></i>Logistic regression</a></li>
</ul></li>
<li class="chapter" data-level="23" data-path="comparison-and-selection.html"><a href="comparison-and-selection.html"><i class="fa fa-check"></i><b>23</b> Building and choosing models</a><ul>
<li class="chapter" data-level="25" data-path="comparison-and-selection.html"><a href="comparison-and-selection.html"><i class="fa fa-check"></i><b>25</b> Building and choosing models</a><ul>
<li class="chapter" data-level="" data-path="comparison-and-selection.html"><a href="comparison-and-selection.html#like-maps-models-are-imperfect-but-useful"><i class="fa fa-check"></i>Like maps, models are imperfect but useful</a></li>
<li class="chapter" data-level="" data-path="comparison-and-selection.html"><a href="comparison-and-selection.html#over-fitting"><i class="fa fa-check"></i>Overfitting/underfitting</a></li>
<li class="chapter" data-level="" data-path="comparison-and-selection.html"><a href="comparison-and-selection.html#variable-selection"><i class="fa fa-check"></i>Choosing the ‘right variables’</a></li>
</ul></li>
<li class="part"><span><b>VI Loose ends</b></span></li>
<li class="chapter" data-level="24" data-path="r-details.html"><a href="r-details.html"><i class="fa fa-check"></i><b>24</b> R in daily life</a><ul>
<li class="chapter" data-level="" data-path="installation-intro.html"><a href="installation-intro.html"><i class="fa fa-check"></i>Installation</a></li>
<li class="chapter" data-level="" data-path="packages.html"><a href="packages.html"><i class="fa fa-check"></i>Packages</a></li>
</ul></li>
<li class="chapter" data-level="25" data-path="quirks.html"><a href="quirks.html"><i class="fa fa-check"></i><b>25</b> Quirks of R</a><ul>
<li class="chapter" data-level="" data-path="rownames.html"><a href="rownames.html"><i class="fa fa-check"></i>Rownames are evil</a></li>
<li class="chapter" data-level="" data-path="string-handling.html"><a href="string-handling.html"><i class="fa fa-check"></i>Working with character strings</a><ul>
<li class="chapter" data-level="25.0.1" data-path="string-handling.html"><a href="string-handling.html#searching-and-replacing"><i class="fa fa-check"></i><b>25.0.1</b> Searching and replacing</a></li>
<li><a href="processing-vectors.html#paste">Using <code>paste</code> to make labels</a></li>
<li><a href="string-handling.html#separate-and-extract">Fixing up <code>variable</code> after melting</a></li>
</ul></li>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html"><i class="fa fa-check"></i>Colours</a><ul>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html#picking-colours"><i class="fa fa-check"></i>Picking colours for plots</a></li>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html#named-colours"><i class="fa fa-check"></i>Named colours in R</a></li>
<li class="chapter" data-level="" data-path="colours.html"><a href="colours.html#color-brewer"><i class="fa fa-check"></i>ColourBrewer with ggplot</a></li>
</ul></li>
</ul></li>
<li class="chapter" data-level="26" data-path="getting-help.html"><a href="getting-help.html"><i class="fa fa-check"></i><b>26</b> Getting help</a><ul>
<li class="chapter" data-level="" data-path="getting-help.html"><a href="getting-help.html#backtick-location"><i class="fa fa-check"></i>Finding the backtick on your keyboard</a></li>
</ul></li>
<li class="chapter" data-level="27" data-path="sharing-and-publication.html"><a href="sharing-and-publication.html"><i class="fa fa-check"></i><b>27</b> Sharing, publishing and archiving</a><ul>
<li class="chapter" data-level="" data-path="sharing-and-publication.html"><a href="sharing-and-publication.html#publication"><i class="fa fa-check"></i>Tips for dead tree journals</a></li>
<li class="chapter" data-level="27.0.1" data-path="sharing-and-publication.html"><a href="sharing-and-publication.html#registering-your-predictions---register-predictions"><i class="fa fa-check"></i><b>27.0.1</b> Registering your predictions (- #register-predictions)</a></li>
<li class="chapter" data-level="" data-path="sharing-and-publication.html"><a href="sharing-and-publication.html#archiving-data"><i class="fa fa-check"></i>Archiving data</a></li>
<li class="chapter" data-level="27.1" data-path="writing-paper.html"><a href="writing-paper.html"><i class="fa fa-check"></i><b>27.1</b> Writing a complete paper in RMarkdown</a></li>
<li class="chapter" data-level="" data-path="raw-data-mess.html"><a href="raw-data-mess.html"><i class="fa fa-check"></i>Cleaning up the mess: dealing with raw data</a></li>
<li class="chapter" data-level="" data-path="table1.html"><a href="table1.html"><i class="fa fa-check"></i>“Table 1”</a></li>
</ul></li>
<li class="chapter" data-level="" data-path="references.html"><a href="references.html"><i class="fa fa-check"></i>References</a></li>
</ul>

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