-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathQuartoGrattan.html
932 lines (902 loc) · 43.6 KB
/
QuartoGrattan.html
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
740
741
742
743
744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
797
798
799
800
801
802
803
804
805
806
807
808
809
810
811
812
813
814
815
816
817
818
819
820
821
822
823
824
825
826
827
828
829
830
831
832
833
834
835
836
837
838
839
840
841
842
843
844
845
846
847
848
849
850
851
852
853
854
855
856
857
858
859
860
861
862
863
864
865
866
867
868
869
870
871
872
873
874
875
876
877
878
879
880
881
882
883
884
885
886
887
888
889
890
891
892
893
894
895
896
897
898
899
900
901
902
903
904
905
906
907
908
909
910
911
912
913
914
915
916
917
918
919
920
921
922
923
924
925
926
927
928
929
930
931
932
<!DOCTYPE html>
<html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
<meta charset="utf-8">
<meta name="generator" content="quarto-1.4.553">
<meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
<title>Benefits of Quarto 💡</title>
<style>
code{white-space: pre-wrap;}
span.smallcaps{font-variant: small-caps;}
div.columns{display: flex; gap: min(4vw, 1.5em);}
div.column{flex: auto; overflow-x: auto;}
div.hanging-indent{margin-left: 1.5em; text-indent: -1.5em;}
ul.task-list{list-style: none;}
ul.task-list li input[type="checkbox"] {
width: 0.8em;
margin: 0 0.8em 0.2em -1em; /* quarto-specific, see https://github.com/quarto-dev/quarto-cli/issues/4556 */
vertical-align: middle;
}
/* CSS for syntax highlighting */
pre > code.sourceCode { white-space: pre; position: relative; }
pre > code.sourceCode > span { line-height: 1.25; }
pre > code.sourceCode > span:empty { height: 1.2em; }
.sourceCode { overflow: visible; }
code.sourceCode > span { color: inherit; text-decoration: inherit; }
div.sourceCode { margin: 1em 0; }
pre.sourceCode { margin: 0; }
@media screen {
div.sourceCode { overflow: auto; }
}
@media print {
pre > code.sourceCode { white-space: pre-wrap; }
pre > code.sourceCode > span { text-indent: -5em; padding-left: 5em; }
}
pre.numberSource code
{ counter-reset: source-line 0; }
pre.numberSource code > span
{ position: relative; left: -4em; counter-increment: source-line; }
pre.numberSource code > span > a:first-child::before
{ content: counter(source-line);
position: relative; left: -1em; text-align: right; vertical-align: baseline;
border: none; display: inline-block;
-webkit-touch-callout: none; -webkit-user-select: none;
-khtml-user-select: none; -moz-user-select: none;
-ms-user-select: none; user-select: none;
padding: 0 4px; width: 4em;
}
pre.numberSource { margin-left: 3em; padding-left: 4px; }
div.sourceCode
{ }
@media screen {
pre > code.sourceCode > span > a:first-child::before { text-decoration: underline; }
}
</style>
<script src="QuartoGrattan_files/libs/clipboard/clipboard.min.js"></script>
<script src="QuartoGrattan_files/libs/quarto-html/quarto.js"></script>
<script src="QuartoGrattan_files/libs/quarto-html/popper.min.js"></script>
<script src="QuartoGrattan_files/libs/quarto-html/tippy.umd.min.js"></script>
<script src="QuartoGrattan_files/libs/quarto-html/anchor.min.js"></script>
<link href="QuartoGrattan_files/libs/quarto-html/tippy.css" rel="stylesheet">
<link href="QuartoGrattan_files/libs/quarto-html/quarto-syntax-highlighting.css" rel="stylesheet" id="quarto-text-highlighting-styles">
<script src="QuartoGrattan_files/libs/bootstrap/bootstrap.min.js"></script>
<link href="QuartoGrattan_files/libs/bootstrap/bootstrap-icons.css" rel="stylesheet">
<link href="QuartoGrattan_files/libs/bootstrap/bootstrap.min.css" rel="stylesheet" id="quarto-bootstrap" data-mode="light">
<script async="" src="https://hypothes.is/embed.js"></script>
<script>
window.document.addEventListener("DOMContentLoaded", function (_event) {
document.body.classList.add('hypothesis-enabled');
});
</script>
</head>
<body>
<div id="quarto-content" class="page-columns page-rows-contents page-layout-article">
<div id="quarto-margin-sidebar" class="sidebar margin-sidebar">
<nav id="TOC" role="doc-toc" class="toc-active">
<h2 id="toc-title">Table of contents</h2>
<ul>
<li><a href="#what-is-quarto" id="toc-what-is-quarto" class="nav-link active" data-scroll-target="#what-is-quarto">What is Quarto?</a></li>
<li><a href="#why-quarto" id="toc-why-quarto" class="nav-link" data-scroll-target="#why-quarto">Why Quarto?</a></li>
<li><a href="#use-cases-for-grattan" id="toc-use-cases-for-grattan" class="nav-link" data-scroll-target="#use-cases-for-grattan">Use Cases for Grattan</a></li>
<li><a href="#setting-up-quarto" id="toc-setting-up-quarto" class="nav-link" data-scroll-target="#setting-up-quarto">Setting Up Quarto</a>
<ul class="collapse">
<li><a href="#multi-language-support" id="toc-multi-language-support" class="nav-link" data-scroll-target="#multi-language-support">Multi-language Support</a></li>
<li><a href="#annotating-code" id="toc-annotating-code" class="nav-link" data-scroll-target="#annotating-code">Annotating Code</a></li>
</ul></li>
<li><a href="#creating-captivating-stand-alone-documents" id="toc-creating-captivating-stand-alone-documents" class="nav-link" data-scroll-target="#creating-captivating-stand-alone-documents">Creating Captivating Stand Alone Documents</a>
<ul class="collapse">
<li><a href="#callouts" id="toc-callouts" class="nav-link" data-scroll-target="#callouts">Callouts</a></li>
<li><a href="#interactive-ways-to-break-up-documents" id="toc-interactive-ways-to-break-up-documents" class="nav-link" data-scroll-target="#interactive-ways-to-break-up-documents">Interactive ways to break up documents</a></li>
<li><a href="#commenting-and-highlighting" id="toc-commenting-and-highlighting" class="nav-link" data-scroll-target="#commenting-and-highlighting">Commenting and Highlighting</a></li>
<li><a href="#formatting-images" id="toc-formatting-images" class="nav-link" data-scroll-target="#formatting-images">Formatting Images</a></li>
</ul></li>
<li><a href="#nicks-fantastic-blog-using-quarto" id="toc-nicks-fantastic-blog-using-quarto" class="nav-link" data-scroll-target="#nicks-fantastic-blog-using-quarto">Nick’s (fantastic) blog using Quarto</a></li>
</ul>
<div class="quarto-other-links"><h2>Other Links</h2><ul><li><a href="https://quarto.org/docs/faq/"><i class="bi bi-link-45deg"></i>FAQ for Quarto</a></li><li><a href="https://quarto.org/docs/guide/"><i class="bi bi-link-45deg"></i>Quarto Guide</a></li></ul></div></nav>
</div>
<main class="content" id="quarto-document-content">
<header id="title-block-header" class="quarto-title-block default">
<div class="quarto-title">
<h1 class="title">Benefits of Quarto 💡</h1>
</div>
<div class="quarto-title-meta">
</div>
</header>
<section id="what-is-quarto" class="level2">
<h2 class="anchored" data-anchor-id="what-is-quarto">What is Quarto?</h2>
<p>“Quarto is a multi-language, next generation version of R Markdown from Posit, with many new new features and capabilities. Like R Markdown, Quarto uses knitr to execute R code, and is therefore able to render most existing Rmd files <a href="https://quarto.org/">without modification</a>.”</p>
</section>
<section id="why-quarto" class="level2">
<h2 class="anchored" data-anchor-id="why-quarto">Why Quarto?</h2>
<ul>
<li>Seamless integration</li>
<li>Ease of use</li>
<li>More intuitive than using R Markdown or even R scripts.</li>
<li>Potential of creating dashboards to illustrate statistical analysis undertaken</li>
</ul>
</section>
<section id="use-cases-for-grattan" class="level2">
<h2 class="anchored" data-anchor-id="use-cases-for-grattan">Use Cases for Grattan</h2>
<p>Version control, reproducibility in code, sharing work efficiently with your team and passing work on to others.</p>
<ul>
<li>Seamless integration in being able to create <a href="https://grattan.github.io/school-ed-2025-primary-maths/">blogs</a>.</li>
<li>PISA analysis: QC, VC, adaptability.</li>
<li><a href="https://grattan.github.io/R_at_Grattan/">Grattan R Guide</a>. Instead of requiring bookdown here, we could directly use Quarto.</li>
</ul>
</section>
<section id="setting-up-quarto" class="level2">
<h2 class="anchored" data-anchor-id="setting-up-quarto">Setting Up Quarto</h2>
<p>To get started with Quarto, you will need to <strong>install Quarto</strong>. You can do this by <a href="https://quarto.org/docs/get-started/">here</a>.</p>
<p>Once you have installed the Quarto, you can create a new Quarto document by:</p>
<ol type="1">
<li><p>Go to the File menu in RStudio</p></li>
<li><p>Select New <code>File</code> > <code>New File</code> > <code>Quarto Document</code></p></li>
</ol>
<div class="quarto-figure quarto-figure-center">
<figure class="figure">
<p><img src="images/select_new.png" class="img-fluid quarto-figure quarto-figure-center figure-img" width="307"></p>
</figure>
</div>
<ol start="3" type="1">
<li>Choose the document type: <code>Document</code>, <code>Presentation</code>, or <code>Interactive</code>.</li>
</ol>
<div class="quarto-figure quarto-figure-center">
<figure class="figure">
<p><img src="images/document_type.png" class="img-fluid quarto-figure quarto-figure-center figure-img" width="347"></p>
</figure>
</div>
<div class="callout callout-style-default callout-note callout-titled">
<div class="callout-header d-flex align-content-center">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Note
</div>
</div>
<div class="callout-body-container callout-body">
<p>A Quarto file is a plain text file with the extension <code>.qmd</code>.</p>
</div>
</div>
<section id="multi-language-support" class="level3">
<h3 class="anchored" data-anchor-id="multi-language-support">Multi-language Support</h3>
<p>The principal languages supported by Quarto are Python, R, Julia, and Observable JavaScript.</p>
<div class="cell">
<div class="sourceCode cell-code" id="cb1"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> pandas <span class="im">as</span> pd</span>
<span id="cb1-2"><a href="#cb1-2" aria-hidden="true" tabindex="-1"></a></span>
<span id="cb1-3"><a href="#cb1-3" aria-hidden="true" tabindex="-1"></a><span class="co"># creating a dataframe</span></span>
<span id="cb1-4"><a href="#cb1-4" aria-hidden="true" tabindex="-1"></a>population_data <span class="op">=</span> {</span>
<span id="cb1-5"><a href="#cb1-5" aria-hidden="true" tabindex="-1"></a> <span class="st">'Name'</span>: [<span class="st">'Alice'</span>, <span class="st">'Bob'</span>, <span class="st">'Charlie'</span>, <span class="st">'David'</span>],</span>
<span id="cb1-6"><a href="#cb1-6" aria-hidden="true" tabindex="-1"></a> <span class="st">'Age'</span>: [<span class="dv">24</span>, <span class="dv">27</span>, <span class="dv">22</span>, <span class="dv">32</span>],</span>
<span id="cb1-7"><a href="#cb1-7" aria-hidden="true" tabindex="-1"></a> <span class="st">'City'</span>: [<span class="st">'New York'</span>, <span class="st">'Los Angeles'</span>, <span class="st">'Chicago'</span>, <span class="st">'Houston'</span>]</span>
<span id="cb1-8"><a href="#cb1-8" aria-hidden="true" tabindex="-1"></a>}</span>
<span id="cb1-9"><a href="#cb1-9" aria-hidden="true" tabindex="-1"></a></span>
<span id="cb1-10"><a href="#cb1-10" aria-hidden="true" tabindex="-1"></a>df <span class="op">=</span> pd.DataFrame(population_data)</span>
<span id="cb1-11"><a href="#cb1-11" aria-hidden="true" tabindex="-1"></a><span class="bu">print</span>(<span class="st">"DataFrame:</span><span class="ch">\n</span><span class="st">"</span>, df)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-stdout">
<pre><code>DataFrame:
Name Age City
0 Alice 24 New York
1 Bob 27 Los Angeles
2 Charlie 22 Chicago
3 David 32 Houston</code></pre>
</div>
<div class="sourceCode cell-code" id="cb3"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb3-1"><a href="#cb3-1" aria-hidden="true" tabindex="-1"></a><span class="co"># Calculate the mean age</span></span>
<span id="cb3-2"><a href="#cb3-2" aria-hidden="true" tabindex="-1"></a>mean_age <span class="op">=</span> df[<span class="st">'Age'</span>].mean()</span>
<span id="cb3-3"><a href="#cb3-3" aria-hidden="true" tabindex="-1"></a><span class="bu">print</span>(<span class="st">"</span><span class="ch">\n</span><span class="st">Mean Age:"</span>, mean_age)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-stdout">
<pre><code>
Mean Age: 26.25</code></pre>
</div>
</div>
<section id="chunk-options" class="level4">
<h4 class="anchored" data-anchor-id="chunk-options">Chunk Options</h4>
<div class="cell">
<div class="sourceCode cell-code" id="cb5"><pre class="sourceCode markdown code-with-copy"><code class="sourceCode markdown"><span id="cb5-1"><a href="#cb5-1" aria-hidden="true" tabindex="-1"></a><span class="in">```{r}</span></span>
<span id="cb5-2"><a href="#cb5-2" aria-hidden="true" tabindex="-1"></a><span class="in">#| label: fig-mtcars</span></span>
<span id="cb5-3"><a href="#cb5-3" aria-hidden="true" tabindex="-1"></a><span class="in">#| fig-cap: "A plot of the mtcars dataset"</span></span>
<span id="cb5-4"><a href="#cb5-4" aria-hidden="true" tabindex="-1"></a><span class="in">#| fig-subcap:</span></span>
<span id="cb5-5"><a href="#cb5-5" aria-hidden="true" tabindex="-1"></a><span class="in">#| - "Relationship between mpg and wt"</span></span>
<span id="cb5-6"><a href="#cb5-6" aria-hidden="true" tabindex="-1"></a></span>
<span id="cb5-7"><a href="#cb5-7" aria-hidden="true" tabindex="-1"></a><span class="in">library(ggplot2)</span></span>
<span id="cb5-8"><a href="#cb5-8" aria-hidden="true" tabindex="-1"></a></span>
<span id="cb5-9"><a href="#cb5-9" aria-hidden="true" tabindex="-1"></a><span class="in">mtcars |> </span></span>
<span id="cb5-10"><a href="#cb5-10" aria-hidden="true" tabindex="-1"></a><span class="in"> ggplot(aes(x = mpg, y = wt)) +</span></span>
<span id="cb5-11"><a href="#cb5-11" aria-hidden="true" tabindex="-1"></a><span class="in"> geom_point()</span></span>
<span id="cb5-12"><a href="#cb5-12" aria-hidden="true" tabindex="-1"></a><span class="in">```</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div id="fig-mtcars" class="cell quarto-figure quarto-figure-center quarto-float anchored">
<figure class="quarto-float quarto-float-fig figure">
<div aria-describedby="fig-mtcars-caption-0ceaefa1-69ba-4598-a22c-09a6ac19f8ca">
<div class="cell-output-display">
<div id="fig-mtcars" class="quarto-figure quarto-figure-center quarto-float anchored">
<figure class="quarto-float quarto-subfloat-fig figure">
<div aria-describedby="fig-mtcars-caption-0ceaefa1-69ba-4598-a22c-09a6ac19f8ca">
<img src="QuartoGrattan_files/figure-html/fig-mtcars-1.png" class="img-fluid figure-img" data-ref-parent="fig-mtcars" width="672">
</div>
<figcaption class="quarto-float-caption-bottom quarto-subfloat-caption quarto-subfloat-fig" id="fig-mtcars-caption-0ceaefa1-69ba-4598-a22c-09a6ac19f8ca">
(a) Relationship between mpg and wt
</figcaption>
</figure>
</div>
</div>
</div>
<figcaption class="quarto-float-caption-bottom quarto-float-caption quarto-float-fig" id="fig-mtcars-caption-0ceaefa1-69ba-4598-a22c-09a6ac19f8ca">
Figure 1: A plot of the mtcars dataset
</figcaption>
</figure>
</div>
</div>
<p>Referencing plots made is easy, you can use <a href="#fig-mtcars" class="quarto-xref">Figure 1</a> to reference the plot above.</p>
</section>
</section>
<section id="annotating-code" class="level3">
<h3 class="anchored" data-anchor-id="annotating-code">Annotating Code</h3>
<div class="cell">
<div class="sourceCode cell-code" id="annotated-cell-4"><pre class="sourceCode r code-annotation-code code-with-copy code-annotated"><code class="sourceCode r"><button class="code-annotation-anchor" data-target-cell="annotated-cell-4" data-target-annotation="1">1</button><span id="annotated-cell-4-1" class="code-annotation-target"><a href="#annotated-cell-4-1" aria-hidden="true" tabindex="-1"></a><span class="fu">library</span>(palmerpenguins)</span>
<span id="annotated-cell-4-2"><a href="#annotated-cell-4-2" aria-hidden="true" tabindex="-1"></a><span class="fu">library</span>(dplyr)</span>
<button class="code-annotation-anchor" data-target-cell="annotated-cell-4" data-target-annotation="2">2</button><span id="annotated-cell-4-3" class="code-annotation-target"><a href="#annotated-cell-4-3" aria-hidden="true" tabindex="-1"></a>penguins <span class="sc">|></span></span>
<button class="code-annotation-anchor" data-target-cell="annotated-cell-4" data-target-annotation="3">3</button><span id="annotated-cell-4-4" class="code-annotation-target"><a href="#annotated-cell-4-4" aria-hidden="true" tabindex="-1"></a> <span class="fu">select</span>(flipper_length_mm) <span class="sc">|></span></span>
<button class="code-annotation-anchor" data-target-cell="annotated-cell-4" data-target-annotation="4">4</button><span id="annotated-cell-4-5" class="code-annotation-target"><a href="#annotated-cell-4-5" aria-hidden="true" tabindex="-1"></a> <span class="fu">arrange</span>()</span><div class="code-annotation-gutter-bg"></div><div class="code-annotation-gutter"></div></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-annotation">
<dl class="code-annotation-container-hidden code-annotation-container-grid">
<dt data-target-cell="annotated-cell-4" data-target-annotation="1">1</dt>
<dd>
<span data-code-cell="annotated-cell-4" data-code-lines="1,2" data-code-annotation="1">Load the <code>palmerpenguins</code> and <code>dplyr</code> libraries.</span>
</dd>
<dt data-target-cell="annotated-cell-4" data-target-annotation="2">2</dt>
<dd>
<span data-code-cell="annotated-cell-4" data-code-lines="3" data-code-annotation="2">Choose the data you’d like to work with.</span>
</dd>
<dt data-target-cell="annotated-cell-4" data-target-annotation="3">3</dt>
<dd>
<span data-code-cell="annotated-cell-4" data-code-lines="4" data-code-annotation="3">Choosing the variable I’d like to explore</span>
</dd>
<dt data-target-cell="annotated-cell-4" data-target-annotation="4">4</dt>
<dd>
<span data-code-cell="annotated-cell-4" data-code-lines="5" data-code-annotation="4">Arrange in ascending order the variable by <code>flipper_length_mm</code>.</span>
</dd>
</dl>
</div>
</div>
<div class="cell">
<div class="sourceCode cell-code" id="annotated-cell-5"><pre class="sourceCode r code-annotation-code code-with-copy code-annotated"><code class="sourceCode r"><span id="annotated-cell-5-1"><a href="#annotated-cell-5-1" aria-hidden="true" tabindex="-1"></a><span class="fu">library</span>(tidyverse)</span>
<span id="annotated-cell-5-2"><a href="#annotated-cell-5-2" aria-hidden="true" tabindex="-1"></a><span class="fu">library</span>(palmerpenguins)</span>
<button class="code-annotation-anchor" data-target-cell="annotated-cell-5" data-target-annotation="1">1</button><span id="annotated-cell-5-3" class="code-annotation-target"><a href="#annotated-cell-5-3" aria-hidden="true" tabindex="-1"></a>penguins <span class="sc">|></span></span>
<button class="code-annotation-anchor" data-target-cell="annotated-cell-5" data-target-annotation="2">2</button><span id="annotated-cell-5-4" class="code-annotation-target"><a href="#annotated-cell-5-4" aria-hidden="true" tabindex="-1"></a> <span class="fu">mutate</span>(</span>
<button class="code-annotation-anchor" data-target-cell="annotated-cell-5" data-target-annotation="3">3</button><span id="annotated-cell-5-5" class="code-annotation-target"><a href="#annotated-cell-5-5" aria-hidden="true" tabindex="-1"></a> <span class="at">bill_ratio =</span> bill_depth_mm <span class="sc">/</span> bill_length_mm,</span>
<span id="annotated-cell-5-6"><a href="#annotated-cell-5-6" aria-hidden="true" tabindex="-1"></a> <span class="at">bill_area =</span> bill_depth_mm <span class="sc">*</span> bill_length_mm</span>
<span id="annotated-cell-5-7"><a href="#annotated-cell-5-7" aria-hidden="true" tabindex="-1"></a> )</span><div class="code-annotation-gutter-bg"></div><div class="code-annotation-gutter"></div></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-annotation">
<dl class="code-annotation-container-hidden code-annotation-container-grid">
<dt data-target-cell="annotated-cell-5" data-target-annotation="1">1</dt>
<dd>
<span data-code-cell="annotated-cell-5" data-code-lines="3" data-code-annotation="1">Take <code>penguins</code>, and then,</span>
</dd>
<dt data-target-cell="annotated-cell-5" data-target-annotation="2">2</dt>
<dd>
<span data-code-cell="annotated-cell-5" data-code-lines="4,7" data-code-annotation="2">Add new columns for the <code>bill_ratio</code> and <code>bill_area</code>.</span>
</dd>
<dt data-target-cell="annotated-cell-5" data-target-annotation="3">3</dt>
<dd>
<span data-code-cell="annotated-cell-5" data-code-lines="5,6" data-code-annotation="3">Calculate the ratio of <code>bill_depth_mm</code> to <code>bill_length_mm</code> and the area of the bill.</span>
</dd>
</dl>
</div>
</div>
</section>
</section>
<section id="creating-captivating-stand-alone-documents" class="level2">
<h2 class="anchored" data-anchor-id="creating-captivating-stand-alone-documents">Creating Captivating Stand Alone Documents</h2>
<section id="callouts" class="level3">
<h3 class="anchored" data-anchor-id="callouts">Callouts</h3>
<ul>
<li>Using callouts to highlight important information and break up text</li>
</ul>
<div class="callout callout-style-default callout-note callout-titled">
<div class="callout-header d-flex align-content-center">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Note
</div>
</div>
<div class="callout-body-container callout-body">
<p>Note that there are five types of callouts, including: <code>note</code>, <code>warning</code>, <code>important</code>, <code>tip</code>, and <code>caution</code>.</p>
</div>
</div>
<div class="callout callout-style-default callout-tip callout-titled">
<div class="callout-header d-flex align-content-center">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Tip with Title
</div>
</div>
<div class="callout-body-container callout-body">
<p>This is an example of a callout with a title.</p>
</div>
</div>
<div class="callout callout-style-default callout-warning callout-titled">
<div class="callout-header d-flex align-content-center">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Warning
</div>
</div>
<div class="callout-body-container callout-body">
<p>This is a warning callout</p>
</div>
</div>
<div class="callout callout-style-default callout-important callout-titled">
<div class="callout-header d-flex align-content-center">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Important
</div>
</div>
<div class="callout-body-container callout-body">
<p>This is a important callout</p>
</div>
</div>
<div class="callout callout-style-default callout-caution callout-titled">
<div class="callout-header d-flex align-content-center" data-bs-toggle="collapse" data-bs-target=".callout-6-contents" aria-controls="callout-6" aria-expanded="false" aria-label="Toggle callout">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Collapse Call Outs
</div>
<div class="callout-btn-toggle d-inline-block border-0 py-1 ps-1 pe-0 float-end"><i class="callout-toggle"></i></div>
</div>
<div id="callout-6" class="callout-6-contents callout-collapse collapse">
<div class="callout-body-container callout-body">
<p>Allows you to add more information that is valuable, but may not need to be taking space in the document. <code>collapse="false"</code> will show the content by default.</p>
</div>
</div>
</div>
</section>
<section id="interactive-ways-to-break-up-documents" class="level3">
<h3 class="anchored" data-anchor-id="interactive-ways-to-break-up-documents">Interactive ways to break up documents</h3>
<div class="tabset-margin-container"></div><div class="panel-tabset" data-group="Perspectives">
<ul class="nav nav-tabs" role="tablist"><li class="nav-item" role="presentation"><a class="nav-link active" id="tabset-1-1-tab" data-bs-toggle="tab" data-bs-target="#tabset-1-1" role="tab" aria-controls="tabset-1-1" aria-selected="true" href="">Sweave</a></li><li class="nav-item" role="presentation"><a class="nav-link" id="tabset-1-2-tab" data-bs-toggle="tab" data-bs-target="#tabset-1-2" role="tab" aria-controls="tabset-1-2" aria-selected="false" href="">R Markdown</a></li></ul>
<div class="tab-content" data-group="Perspectives">
<div id="tabset-1-1" class="tab-pane active" role="tabpanel" aria-labelledby="tabset-1-1-tab">
<p><strong>Sweave</strong> was one of the first tools for literate programming in R, allowing users to embed R code in LaTeX documents.</p>
</div>
<div id="tabset-1-2" class="tab-pane" role="tabpanel" aria-labelledby="tabset-1-2-tab">
<p><strong>R Markdown</strong> is a modern alternative to Sweave, integrating text and R code to produce different outputs such as HTML, PDF, and Word, not <em>just LaTeX.</em></p>
</div>
</div>
</div>
</section>
<section id="commenting-and-highlighting" class="level3">
<h3 class="anchored" data-anchor-id="commenting-and-highlighting">Commenting and Highlighting</h3>
<p>Another fun thing about Quarto is the ability to add comments to your document. This can be done using the <code>comments</code> option in the YAML front matter.</p>
<p>You can also turn comments off on specific pages by using the <code>comments: false</code> option in the YAML of that specific page!</p>
<p>To use the commenting and highlighting feature used in this qmd, you will need to register for an account with <a href="https://web.hypothes.is/">Hypothes.is</a>.</p>
<div class="callout callout-style-default callout-tip callout-titled">
<div class="callout-header d-flex align-content-center">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Tip
</div>
</div>
<div class="callout-body-container callout-body">
<p><code>hypothes.is</code> is one of the commenting features you can use, for more view <a href="https://quarto.org/docs/reference/projects/websites.html#utterances">here</a>.</p>
</div>
</div>
<p>This feature can be used on <a href="https://quarto.org/docs/publishing/">published</a> and private Quarto documents.</p>
</section>
<section id="formatting-images" class="level3">
<h3 class="anchored" data-anchor-id="formatting-images">Formatting Images</h3>
<div>
</div>
<div class="quarto-layout-panel" data-layout="[[1,1], [1]]">
<div class="quarto-layout-row">
<div class="quarto-layout-cell" style="flex-basis: 50.0%;justify-content: flex-start;">
<div class="quarto-figure quarto-figure-center">
<figure class="figure">
<p><img src="images/cat1.png" height="400" class="figure-img"></p>
<figcaption>Cat</figcaption>
</figure>
</div>
</div>
<div class="quarto-layout-cell" style="flex-basis: 50.0%;justify-content: flex-start;">
<div class="quarto-figure quarto-figure-center">
<figure class="figure">
<p><img src="images/cat2.png" height="400" class="figure-img"></p>
<figcaption>Cat</figcaption>
</figure>
</div>
</div>
</div>
<div class="quarto-layout-row">
<div class="quarto-layout-cell" style="flex-basis: 100.0%;justify-content: flex-start;">
<div class="quarto-figure quarto-figure-center">
<figure class="figure">
<p><img src="images/cat3.png" class="img-fluid figure-img" width="800"></p>
<figcaption>Not a cat</figcaption>
</figure>
</div>
</div>
</div>
</div>
<p>For more <a href="https://quarto.org/docs/authoring/figures.html#complex-layouts">layout options</a>.</p>
<div class="callout callout-style-default callout-note callout-titled">
<div class="callout-header d-flex align-content-center">
<div class="callout-icon-container">
<i class="callout-icon"></i>
</div>
<div class="callout-title-container flex-fill">
Hover Option
</div>
</div>
<div class="callout-body-container callout-body">
<p>Hover option for cross-referencing makes it easier for readers to quickly glance at the figure at later points in the report, i.e. <a href="#fig-mtcars" class="quarto-xref">Figure 1</a>.</p>
</div>
</div>
</section>
</section>
<section id="nicks-fantastic-blog-using-quarto" class="level2">
<h2 class="anchored" data-anchor-id="nicks-fantastic-blog-using-quarto">Nick’s (fantastic) blog using Quarto</h2>
<p>Seamless integration in being able to create <a href="https://grattan.github.io/school-ed-2025-primary-maths/">blogs</a>.</p>
</section>
</main>
<!-- /main column -->
<script id="quarto-html-after-body" type="application/javascript">
window.document.addEventListener("DOMContentLoaded", function (event) {
const toggleBodyColorMode = (bsSheetEl) => {
const mode = bsSheetEl.getAttribute("data-mode");
const bodyEl = window.document.querySelector("body");
if (mode === "dark") {
bodyEl.classList.add("quarto-dark");
bodyEl.classList.remove("quarto-light");
} else {
bodyEl.classList.add("quarto-light");
bodyEl.classList.remove("quarto-dark");
}
}
const toggleBodyColorPrimary = () => {
const bsSheetEl = window.document.querySelector("link#quarto-bootstrap");
if (bsSheetEl) {
toggleBodyColorMode(bsSheetEl);
}
}
toggleBodyColorPrimary();
const icon = "";
const anchorJS = new window.AnchorJS();
anchorJS.options = {
placement: 'right',
icon: icon
};
anchorJS.add('.anchored');
const isCodeAnnotation = (el) => {
for (const clz of el.classList) {
if (clz.startsWith('code-annotation-')) {
return true;
}
}
return false;
}
const clipboard = new window.ClipboardJS('.code-copy-button', {
text: function(trigger) {
const codeEl = trigger.previousElementSibling.cloneNode(true);
for (const childEl of codeEl.children) {
if (isCodeAnnotation(childEl)) {
childEl.remove();
}
}
return codeEl.innerText;
}
});
clipboard.on('success', function(e) {
// button target
const button = e.trigger;
// don't keep focus
button.blur();
// flash "checked"
button.classList.add('code-copy-button-checked');
var currentTitle = button.getAttribute("title");
button.setAttribute("title", "Copied!");
let tooltip;
if (window.bootstrap) {
button.setAttribute("data-bs-toggle", "tooltip");
button.setAttribute("data-bs-placement", "left");
button.setAttribute("data-bs-title", "Copied!");
tooltip = new bootstrap.Tooltip(button,
{ trigger: "manual",
customClass: "code-copy-button-tooltip",
offset: [0, -8]});
tooltip.show();
}
setTimeout(function() {
if (tooltip) {
tooltip.hide();
button.removeAttribute("data-bs-title");
button.removeAttribute("data-bs-toggle");
button.removeAttribute("data-bs-placement");
}
button.setAttribute("title", currentTitle);
button.classList.remove('code-copy-button-checked');
}, 1000);
// clear code selection
e.clearSelection();
});
var localhostRegex = new RegExp(/^(?:http|https):\/\/localhost\:?[0-9]*\//);
var mailtoRegex = new RegExp(/^mailto:/);
var filterRegex = new RegExp('/' + window.location.host + '/');
var isInternal = (href) => {
return filterRegex.test(href) || localhostRegex.test(href) || mailtoRegex.test(href);
}
// Inspect non-navigation links and adorn them if external
var links = window.document.querySelectorAll('a[href]:not(.nav-link):not(.navbar-brand):not(.toc-action):not(.sidebar-link):not(.sidebar-item-toggle):not(.pagination-link):not(.no-external):not([aria-hidden]):not(.dropdown-item):not(.quarto-navigation-tool)');
for (var i=0; i<links.length; i++) {
const link = links[i];
if (!isInternal(link.href)) {
// undo the damage that might have been done by quarto-nav.js in the case of
// links that we want to consider external
if (link.dataset.originalHref !== undefined) {
link.href = link.dataset.originalHref;
}
}
}
function tippyHover(el, contentFn, onTriggerFn, onUntriggerFn) {
const config = {
allowHTML: true,
maxWidth: 500,
delay: 100,
arrow: false,
appendTo: function(el) {
return el.parentElement;
},
interactive: true,
interactiveBorder: 10,
theme: 'quarto',
placement: 'bottom-start',
};
if (contentFn) {
config.content = contentFn;
}
if (onTriggerFn) {
config.onTrigger = onTriggerFn;
}
if (onUntriggerFn) {
config.onUntrigger = onUntriggerFn;
}
window.tippy(el, config);
}
const noterefs = window.document.querySelectorAll('a[role="doc-noteref"]');
for (var i=0; i<noterefs.length; i++) {
const ref = noterefs[i];
tippyHover(ref, function() {
// use id or data attribute instead here
let href = ref.getAttribute('data-footnote-href') || ref.getAttribute('href');
try { href = new URL(href).hash; } catch {}
const id = href.replace(/^#\/?/, "");
const note = window.document.getElementById(id);
if (note) {
return note.innerHTML;
} else {
return "";
}
});
}
const xrefs = window.document.querySelectorAll('a.quarto-xref');
const processXRef = (id, note) => {
// Strip column container classes
const stripColumnClz = (el) => {
el.classList.remove("page-full", "page-columns");
if (el.children) {
for (const child of el.children) {
stripColumnClz(child);
}
}
}
stripColumnClz(note)
if (id === null || id.startsWith('sec-')) {
// Special case sections, only their first couple elements
const container = document.createElement("div");
if (note.children && note.children.length > 2) {
container.appendChild(note.children[0].cloneNode(true));
for (let i = 1; i < note.children.length; i++) {
const child = note.children[i];
if (child.tagName === "P" && child.innerText === "") {
continue;
} else {
container.appendChild(child.cloneNode(true));
break;
}
}
if (window.Quarto?.typesetMath) {
window.Quarto.typesetMath(container);
}
return container.innerHTML
} else {
if (window.Quarto?.typesetMath) {
window.Quarto.typesetMath(note);
}
return note.innerHTML;
}
} else {
// Remove any anchor links if they are present
const anchorLink = note.querySelector('a.anchorjs-link');
if (anchorLink) {
anchorLink.remove();
}
if (window.Quarto?.typesetMath) {
window.Quarto.typesetMath(note);
}
// TODO in 1.5, we should make sure this works without a callout special case
if (note.classList.contains("callout")) {
return note.outerHTML;
} else {
return note.innerHTML;
}
}
}
for (var i=0; i<xrefs.length; i++) {
const xref = xrefs[i];
tippyHover(xref, undefined, function(instance) {
instance.disable();
let url = xref.getAttribute('href');
let hash = undefined;
if (url.startsWith('#')) {
hash = url;
} else {
try { hash = new URL(url).hash; } catch {}
}
if (hash) {
const id = hash.replace(/^#\/?/, "");
const note = window.document.getElementById(id);
if (note !== null) {
try {
const html = processXRef(id, note.cloneNode(true));
instance.setContent(html);
} finally {
instance.enable();
instance.show();
}
} else {
// See if we can fetch this
fetch(url.split('#')[0])
.then(res => res.text())
.then(html => {
const parser = new DOMParser();
const htmlDoc = parser.parseFromString(html, "text/html");
const note = htmlDoc.getElementById(id);
if (note !== null) {
const html = processXRef(id, note);
instance.setContent(html);
}
}).finally(() => {
instance.enable();
instance.show();
});
}
} else {
// See if we can fetch a full url (with no hash to target)
// This is a special case and we should probably do some content thinning / targeting
fetch(url)
.then(res => res.text())
.then(html => {
const parser = new DOMParser();
const htmlDoc = parser.parseFromString(html, "text/html");
const note = htmlDoc.querySelector('main.content');
if (note !== null) {
// This should only happen for chapter cross references
// (since there is no id in the URL)
// remove the first header
if (note.children.length > 0 && note.children[0].tagName === "HEADER") {
note.children[0].remove();
}
const html = processXRef(null, note);
instance.setContent(html);
}
}).finally(() => {
instance.enable();
instance.show();
});
}
}, function(instance) {
});
}
let selectedAnnoteEl;
const selectorForAnnotation = ( cell, annotation) => {
let cellAttr = 'data-code-cell="' + cell + '"';
let lineAttr = 'data-code-annotation="' + annotation + '"';
const selector = 'span[' + cellAttr + '][' + lineAttr + ']';
return selector;
}
const selectCodeLines = (annoteEl) => {
const doc = window.document;
const targetCell = annoteEl.getAttribute("data-target-cell");
const targetAnnotation = annoteEl.getAttribute("data-target-annotation");
const annoteSpan = window.document.querySelector(selectorForAnnotation(targetCell, targetAnnotation));
const lines = annoteSpan.getAttribute("data-code-lines").split(",");
const lineIds = lines.map((line) => {
return targetCell + "-" + line;
})
let top = null;
let height = null;
let parent = null;
if (lineIds.length > 0) {
//compute the position of the single el (top and bottom and make a div)
const el = window.document.getElementById(lineIds[0]);
top = el.offsetTop;
height = el.offsetHeight;
parent = el.parentElement.parentElement;
if (lineIds.length > 1) {
const lastEl = window.document.getElementById(lineIds[lineIds.length - 1]);
const bottom = lastEl.offsetTop + lastEl.offsetHeight;
height = bottom - top;
}
if (top !== null && height !== null && parent !== null) {
// cook up a div (if necessary) and position it
let div = window.document.getElementById("code-annotation-line-highlight");
if (div === null) {
div = window.document.createElement("div");
div.setAttribute("id", "code-annotation-line-highlight");
div.style.position = 'absolute';
parent.appendChild(div);
}
div.style.top = top - 2 + "px";
div.style.height = height + 4 + "px";
div.style.left = 0;
let gutterDiv = window.document.getElementById("code-annotation-line-highlight-gutter");
if (gutterDiv === null) {
gutterDiv = window.document.createElement("div");
gutterDiv.setAttribute("id", "code-annotation-line-highlight-gutter");
gutterDiv.style.position = 'absolute';
const codeCell = window.document.getElementById(targetCell);
const gutter = codeCell.querySelector('.code-annotation-gutter');
gutter.appendChild(gutterDiv);
}
gutterDiv.style.top = top - 2 + "px";
gutterDiv.style.height = height + 4 + "px";
}
selectedAnnoteEl = annoteEl;
}
};
const unselectCodeLines = () => {
const elementsIds = ["code-annotation-line-highlight", "code-annotation-line-highlight-gutter"];
elementsIds.forEach((elId) => {
const div = window.document.getElementById(elId);
if (div) {
div.remove();
}
});
selectedAnnoteEl = undefined;
};
// Handle positioning of the toggle
window.addEventListener(
"resize",
throttle(() => {
elRect = undefined;
if (selectedAnnoteEl) {
selectCodeLines(selectedAnnoteEl);
}
}, 10)
);
function throttle(fn, ms) {
let throttle = false;
let timer;
return (...args) => {
if(!throttle) { // first call gets through
fn.apply(this, args);
throttle = true;
} else { // all the others get throttled
if(timer) clearTimeout(timer); // cancel #2
timer = setTimeout(() => {
fn.apply(this, args);
timer = throttle = false;
}, ms);
}
};
}
const annoteTargets = window.document.querySelectorAll('.code-annotation-anchor');
for (let i=0; i<annoteTargets.length; i++) {
const annoteTarget = annoteTargets[i];
const targetCell = annoteTarget.getAttribute("data-target-cell");
const targetAnnotation = annoteTarget.getAttribute("data-target-annotation");
const contentFn = () => {
const content = window.document.querySelector(selectorForAnnotation(targetCell, targetAnnotation));
if (content) {
const tipContent = content.cloneNode(true);
tipContent.classList.add("code-annotation-tip-content");
return tipContent.outerHTML;
}
}
const config = {
allowHTML: true,
content: contentFn,
onShow: (instance) => {
selectCodeLines(instance.reference);
instance.reference.classList.add('code-annotation-active');
window.tippy.hideAll();
},
onHide: (instance) => {
unselectCodeLines();
instance.reference.classList.remove('code-annotation-active');
},
maxWidth: 300,
delay: [50, 0],
duration: [200, 0],
offset: [5, 10],
arrow: true,
appendTo: function(el) {
return el.parentElement.parentElement.parentElement;
},
interactive: true,
interactiveBorder: 10,
theme: 'quarto',
placement: 'right',
popperOptions: {
modifiers: [
{
name: 'flip',
options: {
flipVariations: false, // true by default
allowedAutoPlacements: ['right'],
fallbackPlacements: ['right', 'top', 'top-start', 'top-end', 'bottom', 'bottom-start', 'bottom-end', 'left'],
},
},
{
name: 'preventOverflow',
options: {
mainAxis: false,
altAxis: false
}
}
]
}
};
window.tippy(annoteTarget, config);
}
const findCites = (el) => {
const parentEl = el.parentElement;
if (parentEl) {
const cites = parentEl.dataset.cites;
if (cites) {
return {
el,
cites: cites.split(' ')
};
} else {
return findCites(el.parentElement)
}
} else {
return undefined;
}
};
var bibliorefs = window.document.querySelectorAll('a[role="doc-biblioref"]');
for (var i=0; i<bibliorefs.length; i++) {
const ref = bibliorefs[i];
const citeInfo = findCites(ref);
if (citeInfo) {
tippyHover(citeInfo.el, function() {
var popup = window.document.createElement('div');
citeInfo.cites.forEach(function(cite) {
var citeDiv = window.document.createElement('div');
citeDiv.classList.add('hanging-indent');
citeDiv.classList.add('csl-entry');
var biblioDiv = window.document.getElementById('ref-' + cite);
if (biblioDiv) {
citeDiv.innerHTML = biblioDiv.innerHTML;
}
popup.appendChild(citeDiv);
});
return popup.innerHTML;
});
}
}
});
</script>
</div> <!-- /content -->
</body></html>