tutorial for week 3

numbats · Mar 8, 2024 · 39d47af · 39d47af
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diff --git a/_quarto.yml b/_quarto.yml
@@ -5,7 +5,6 @@ project:
   - "*.md"
   - "!quizzes/"
   - "!assignments/"
-  - "!week3/tutorial*"
   - "!week3/slides*"
   - "next-time*"
   output-dir: docs

diff --git a/docs/assets/monash.scss b/docs/assets/monash.scss
@@ -281,9 +281,10 @@ Secondary colours are to be used:
 
 div.info {
   padding: 1em;
-  padding-top: 5px;
+  padding-top: 2px;
   padding-left: 10px;
-  margin: 2em 0;
+  margin: 1em 0;
+  padding-bottom: 0px;
   color: #027EB6!important; 
   border-color: #027EB6!important; 
   background-color: rgba(0, 0, 0, 0.1);

diff --git a/docs/gifs/p_split_bad.gif b/docs/gifs/p_split_bad.gif
diff --git a/docs/gifs/p_split_good.gif b/docs/gifs/p_split_good.gif
diff --git a/docs/search.json b/docs/search.json
diff --git a/docs/site_libs/revealjs/dist/theme/quarto.css b/docs/site_libs/revealjs/dist/theme/quarto.css
diff --git a/docs/sitemap.xml b/docs/sitemap.xml
@@ -17,60 +17,68 @@
     <lastmod>2024-02-05T21:19:00.639Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week2/tutorial.html</loc>
-    <lastmod>2024-03-06T00:00:29.640Z</lastmod>
+    <loc>https://iml.numbat.space/week3/index.html</loc>
+    <lastmod>2024-03-08T04:00:34.645Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week2/tutorialsol.html</loc>
-    <lastmod>2024-03-06T00:00:29.640Z</lastmod>
+    <loc>https://iml.numbat.space/week2/slides.html</loc>
+    <lastmod>2024-03-06T03:57:09.178Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week2/index.html</loc>
-    <lastmod>2024-03-03T07:54:29.938Z</lastmod>
+    <loc>https://iml.numbat.space/week12/index.html</loc>
+    <lastmod>2024-02-05T21:32:06.286Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week11/index.html</loc>
-    <lastmod>2024-02-05T21:31:46.270Z</lastmod>
+    <loc>https://iml.numbat.space/week10/index.html</loc>
+    <lastmod>2024-02-05T21:30:53.696Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week1/tutorial.html</loc>
-    <lastmod>2024-02-21T23:44:11.489Z</lastmod>
+    <loc>https://iml.numbat.space/week1/slides.html</loc>
+    <lastmod>2024-02-28T04:27:00.780Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week1/tutorialsol.html</loc>
-    <lastmod>2024-02-21T23:44:11.489Z</lastmod>
+    <loc>https://iml.numbat.space/resources.html</loc>
+    <lastmod>2024-02-18T01:55:28.455Z</lastmod>
+  </url>
+  <url>
+    <loc>https://iml.numbat.space/index.html</loc>
+    <lastmod>2024-03-06T22:08:44.210Z</lastmod>
   </url>
   <url>
     <loc>https://iml.numbat.space/week1/index.html</loc>
     <lastmod>2024-02-18T03:40:04.710Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/index.html</loc>
-    <lastmod>2024-03-06T22:08:44.210Z</lastmod>
+    <loc>https://iml.numbat.space/week1/tutorialsol.html</loc>
+    <lastmod>2024-02-21T23:44:11.489Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/resources.html</loc>
-    <lastmod>2024-02-18T01:55:28.455Z</lastmod>
+    <loc>https://iml.numbat.space/week1/tutorial.html</loc>
+    <lastmod>2024-02-21T23:44:11.489Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week1/slides.html</loc>
-    <lastmod>2024-02-28T04:27:00.780Z</lastmod>
+    <loc>https://iml.numbat.space/week11/index.html</loc>
+    <lastmod>2024-02-05T21:31:46.270Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week10/index.html</loc>
-    <lastmod>2024-02-05T21:30:53.696Z</lastmod>
+    <loc>https://iml.numbat.space/week2/index.html</loc>
+    <lastmod>2024-03-03T07:54:29.938Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week12/index.html</loc>
-    <lastmod>2024-02-05T21:32:06.286Z</lastmod>
+    <loc>https://iml.numbat.space/week2/tutorialsol.html</loc>
+    <lastmod>2024-03-06T00:00:29.640Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week2/slides.html</loc>
-    <lastmod>2024-03-06T03:57:09.178Z</lastmod>
+    <loc>https://iml.numbat.space/week2/tutorial.html</loc>
+    <lastmod>2024-03-06T00:00:29.640Z</lastmod>
   </url>
   <url>
-    <loc>https://iml.numbat.space/week3/index.html</loc>
-    <lastmod>2024-02-05T21:16:00.964Z</lastmod>
+    <loc>https://iml.numbat.space/week3/tutorialsol.html</loc>
+    <lastmod>2024-03-03T03:10:56.561Z</lastmod>
+  </url>
+  <url>
+    <loc>https://iml.numbat.space/week3/tutorial.html</loc>
+    <lastmod>2024-03-03T03:10:56.561Z</lastmod>
   </url>
   <url>
     <loc>https://iml.numbat.space/week5/index.html</loc>

diff --git a/docs/week1/images/slides.rmarkdown/bias1-1.png b/docs/week1/images/slides.rmarkdown/bias1-1.png
diff --git a/docs/week1/images/slides.rmarkdown/bias2-1.png b/docs/week1/images/slides.rmarkdown/bias2-1.png
diff --git a/docs/week1/images/slides.rmarkdown/flexible-model-1.png b/docs/week1/images/slides.rmarkdown/flexible-model-1.png
diff --git a/docs/week1/images/slides.rmarkdown/model-errors1-1.png b/docs/week1/images/slides.rmarkdown/model-errors1-1.png
diff --git a/docs/week1/images/slides.rmarkdown/model-errors2-1.png b/docs/week1/images/slides.rmarkdown/model-errors2-1.png
diff --git a/docs/week1/images/slides.rmarkdown/overview-methods-1.png b/docs/week1/images/slides.rmarkdown/overview-methods-1.png
diff --git a/docs/week1/images/slides.rmarkdown/roc-curve-1.png b/docs/week1/images/slides.rmarkdown/roc-curve-1.png
diff --git a/docs/week1/images/slides.rmarkdown/sin-curve-models-1.png b/docs/week1/images/slides.rmarkdown/sin-curve-models-1.png
diff --git a/docs/week1/images/slides.rmarkdown/sine-curve-plot-1.png b/docs/week1/images/slides.rmarkdown/sine-curve-plot-1.png
diff --git a/docs/week1/images/slides.rmarkdown/tradeoff-acc-interp-1.png b/docs/week1/images/slides.rmarkdown/tradeoff-acc-interp-1.png
diff --git a/docs/week1/images/slides.rmarkdown/training-test-1.png b/docs/week1/images/slides.rmarkdown/training-test-1.png
diff --git a/docs/week1/images/slides.rmarkdown/variance1-1.png b/docs/week1/images/slides.rmarkdown/variance1-1.png
diff --git a/docs/week1/images/slides.rmarkdown/variance2-1.png b/docs/week1/images/slides.rmarkdown/variance2-1.png
diff --git a/docs/week1/slides.html b/docs/week1/slides.html
diff --git a/docs/week2/images/slides.rmarkdown/aspectratio-1.png b/docs/week2/images/slides.rmarkdown/aspectratio-1.png
diff --git a/docs/week2/images/slides.rmarkdown/data-in-model-space1-1.png b/docs/week2/images/slides.rmarkdown/data-in-model-space1-1.png
diff --git a/docs/week2/images/slides.rmarkdown/data-in-model-space2-1.png b/docs/week2/images/slides.rmarkdown/data-in-model-space2-1.png
diff --git a/docs/week2/images/slides.rmarkdown/invisible-1.png b/docs/week2/images/slides.rmarkdown/invisible-1.png
diff --git a/docs/week2/images/slides.rmarkdown/load-penguins-1.png b/docs/week2/images/slides.rmarkdown/load-penguins-1.png
diff --git a/docs/week2/images/slides.rmarkdown/model-in-the-data-space1-1.png b/docs/week2/images/slides.rmarkdown/model-in-the-data-space1-1.png
diff --git a/docs/week2/images/slides.rmarkdown/model-in-the-data-space2-1.png b/docs/week2/images/slides.rmarkdown/model-in-the-data-space2-1.png
diff --git a/docs/week2/images/slides.rmarkdown/penguins-umap-1.png b/docs/week2/images/slides.rmarkdown/penguins-umap-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-12-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-12-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-13-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-13-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-14-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-14-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-15-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-15-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-16-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-16-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-21-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-21-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-32-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-32-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-33-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-33-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-37-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-37-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-38-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-38-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-40-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-40-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-45-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-45-1.png
diff --git a/docs/week2/images/slides.rmarkdown/unnamed-chunk-46-1.png b/docs/week2/images/slides.rmarkdown/unnamed-chunk-46-1.png
diff --git a/docs/week2/images/slides.rmarkdown/visible-1.png b/docs/week2/images/slides.rmarkdown/visible-1.png
diff --git a/docs/week2/slides.html b/docs/week2/slides.html
diff --git a/docs/week3/index.html b/docs/week3/index.html
@@ -191,7 +191,10 @@ <h2 id="toc-title">On this page</h2>
   <ul>
   <li><a href="#main-reference" id="toc-main-reference" class="nav-link active" data-scroll-target="#main-reference">Main reference</a></li>
   <li><a href="#what-you-will-learn-this-week" id="toc-what-you-will-learn-this-week" class="nav-link" data-scroll-target="#what-you-will-learn-this-week">What you will learn this week</a></li>
+  <li><a href="#lecture-slides" id="toc-lecture-slides" class="nav-link" data-scroll-target="#lecture-slides">Lecture slides</a></li>
+  <li><a href="#tutorial-instructions" id="toc-tutorial-instructions" class="nav-link" data-scroll-target="#tutorial-instructions">Tutorial instructions</a></li>
   <li><a href="#assignments" id="toc-assignments" class="nav-link" data-scroll-target="#assignments">Assignments</a></li>
+  <li><a href="#assignments-1" id="toc-assignments-1" class="nav-link" data-scroll-target="#assignments-1">Assignments</a></li>
   </ul>
 </nav>
     </div>
@@ -224,14 +227,35 @@ <h2 class="anchored" data-anchor-id="main-reference">Main reference</h2>
 <section id="what-you-will-learn-this-week" class="level2">
 <h2 class="anchored" data-anchor-id="what-you-will-learn-this-week">What you will learn this week</h2>
 <ul>
+<li>Common re-sampling methods: bootstrap, cross-validation, permutation</li>
 <li>Cross-validation for parameter tuning</li>
 <li>Bootstrapping for understanding variance of parameter estimates</li>
-<li>What can go wrong in high-d</li>
-<li>Regularisation using ridge and lasso when there is insufficient observations relative to number of variables</li>
+<li>Permutation to understand significance of associations between variables, and variable importance</li>
+<li>What can go wrong in high-d, and how to adjust using regularisation methods</li>
+</ul>
+</section>
+<section id="lecture-slides" class="level2">
+<h2 class="anchored" data-anchor-id="lecture-slides">Lecture slides</h2>
+<ul>
+<li><a href="https://iml.numbat.space/week3/slides.html">html</a></li>
+<li><a href="https://iml.numbat.space/week3/slides.pdf">pdf</a></li>
+<li><a href="https://iml.numbat.space/week3/slides.qmd">qmd</a></li>
+<li><a href="https://iml.numbat.space/week3/slides.R">R</a></li>
+</ul>
+</section>
+<section id="tutorial-instructions" class="level2">
+<h2 class="anchored" data-anchor-id="tutorial-instructions">Tutorial instructions</h2>
+<p>Instructions:</p>
+<ul>
+<li><a href="https://iml.numbat.space/week3/tutorial.html">html</a></li>
+<li><a href="https://iml.numbat.space/week3/tutorial.qmd">qmd</a></li>
 </ul>
 </section>
 <section id="assignments" class="level2">
 <h2 class="anchored" data-anchor-id="assignments">Assignments</h2>
+</section>
+<section id="assignments-1" class="level2">
+<h2 class="anchored" data-anchor-id="assignments-1">Assignments</h2>
 <ul>
 <li><a href="../assignments/assign01.zip">Assignment 1</a> is due on Friday 22 March.</li>
 </ul>