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adding slides #13

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27 changes: 17 additions & 10 deletions index.qmd
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Expand Up @@ -10,7 +10,7 @@ The course is intended for researchers who want to continue learning the fundame

- **Understand and distinguish** the use case of data structures to store different types of data.

- **Implement** code to Iterate over a collection (such as files, elements of a column, or a list of objects) to batch process each item.
- **Implement** code to iterate over a collection (such as files, elements of a column, or a list of objects) to batch process each item.

- **Implement** code that has a branching structure depending on input data's condition.

Expand Down Expand Up @@ -39,13 +39,13 @@ All classes are on Wednesdays from 12:00-1:30 PM PST either online, or in Arnold

| Week | Date | Topic |
|------|------|-------|
|1* | Jan 21 | Fundamentals |
|2 | Jan 28 | Iteration (for loops) |
|3* | Feb 4 | Conditionals |
|4 | Feb 11 | Functions |
|1* | Jan 21 | [Fundamentals](01-Fundamentals.qmd) |
|2 | Jan 28 | [Iteration (for loops)](02-Iteration.qmd) |
|3* | Feb 4 | [Conditionals](03-Conditionals.qmd) |
|4 | Feb 11 | [Functions](04-Functions.qmd) |
|No Class | Feb 18 | Break week |
|5 | Feb 25 |Iteration Styles |
|6* | Mar 4 | Last Day of Class |
|5 | Feb 25 | [Iteration Styles](05-Iteration_Styles.qmd) |
|6* | Mar 4 | [Reference vs. Copy](06-Reference_vs_Copy.qmd) / Last Day of Class |

* = Ted on Campus for class

Expand All @@ -62,12 +62,19 @@ We will spend the first 20-25 minutes of each class on catching up on last week'

## First Class Survey

[First Class Survey](https://forms.gle/smj4wFAQufoHsG6h7) - Please fill out. We mostly want to see how confident you are before and after class. We will share these results with everyone (anonymized).
[First Class Survey](https://forms.gle/hGQLZ5AgS6Cs3aW57) - Please fill out. We mostly want to see how confident you are before and after class. We will share these results with everyone (anonymized).

## Weekly Check In

[Weekly Check In Form](https://forms.gle/obwC5GYAA3iPHk5x7) - please fill out to let us know if you have any issues or want to share what you've learned. We look at the answers in aggregate and we anonymize responses (unless you want us to know).
[Weekly Check In Form](https://forms.gle/SaVk8oH6ezWfKaHM7) - please fill out to let us know if you have any issues or want to share what you've learned. We look at the answers in aggregate and we anonymize responses (unless you want us to know).

## Weekly Cheatsheet

I will be posting the recordings, solutions, and notes using the Weekly Cheatsheet. This link will be sent to you.

## Google Classroom

We will be using Google Classroom for exercises. Be sure to submit your exercises through there (it is the main mechanism for us to check them).

## Culture of the course

Expand Down Expand Up @@ -105,4 +112,4 @@ Requirements:

## Offerings

This course is taught on a regular basis at [Fred Hutch Cancer Center](https://www.fredhutch.org/) through the [Data Science Lab](https://hutchdatascience.org/). Announcements of course offering can be found [here](https://hutchdatascience.org/training/).
This course is taught on a regular basis at [Fred Hutch Cancer Center](https://www.fredhutch.org/) through the [Data Science Lab](https://ocdo.fredhutch.org/dasl/). Announcements of course offering can be found [here](https://ocdo.fredhutch.org/dasl/courses/).
99 changes: 72 additions & 27 deletions slides/lesson1_slides.html
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Expand Up @@ -204,7 +204,7 @@ <h1 class="title">W1: Fundamentals</h1>
</section>
<section id="welcome" class="slide level2">
<h2>Welcome!</h2>
<p>Please sign up for Google Classroom (<a href="https://classroom.google.com/c/ODIzOTg2OTExNzU5?cjc=qfqni3j4">link</a> if you haven’t already.</p>
<p>Please sign up for Google Classroom (<a href="https://classroom.google.com/c/ODIzOTg2OTExNzU5?cjc=qfqni3j4">link</a>) if you haven’t already.</p>
</section>
<section id="introductions" class="slide level2">
<h2>Introductions</h2>
Expand Down Expand Up @@ -244,18 +244,63 @@ <h2>Goals of the course</h2>
<h2><a href="https://colab.research.google.com/drive/1g2ylY3-s_jX2Yf2CGkIdApvgTP4vb0Dw?usp=sharing">A Motivating Example</a></h2>
<p><a href="https://colab.research.google.com/drive/1g2ylY3-s_jX2Yf2CGkIdApvgTP4vb0Dw?usp=sharinghttps://colab.research.google.com/drive/1g2ylY3-s_jX2Yf2CGkIdApvgTP4vb0Dw?usp=sharing">https://colab.research.google.com/drive/1g2ylY3-s_jX2Yf2CGkIdApvgTP4vb0Dw?usp=sharing</a></p>
</section>
<section id="content-of-the-course" class="slide level2 scrollable">
<h2>Content of the course</h2>
<ol type="1">
<li>Fundamentals and Dictionaries</li>
<li>Iteration</li>
<li>Functions</li>
<li>Iteration styles</li>
<li>Assignment and References</li>
<li>Mid-winter break! (for Seattle Public Schools)</li>
<li>Modules, Wrap-up, Pizza!</li>
<li>Optional: Data-a-thon Friday March 14, Learning Communities</li>
</ol>
<section id="tentative-schedule" class="slide level2">
<h2>Tentative Schedule</h2>
<table class="caption-top">
<thead>
<tr class="header">
<th>Week</th>
<th>Date</th>
<th>Topic</th>
</tr>
</thead>
<tbody>
<tr class="odd">
<td>1*</td>
<td>Jan 21</td>
<td><a href="01-Fundamentals.qmd">Fundamentals</a></td>
</tr>
<tr class="even">
<td>2</td>
<td>Jan 28</td>
<td><a href="02-Iteration.qmd">Iteration (for loops)</a></td>
</tr>
<tr class="odd">
<td>3*</td>
<td>Feb 4</td>
<td><a href="03-Conditionals.qmd">Conditionals</a></td>
</tr>
<tr class="even">
<td>4</td>
<td>Feb 11</td>
<td><a href="04-Functions.qmd">Functions</a></td>
</tr>
<tr class="odd">
<td>No Class</td>
<td>Feb 18</td>
<td>Break week</td>
</tr>
<tr class="even">
<td>5</td>
<td>Feb 25</td>
<td><a href="05-Iteration_Styles.qmd">Iteration Styles</a></td>
</tr>
<tr class="odd">
<td>6*</td>
<td>Mar 4</td>
<td><a href="06-Reference_vs_Copy.qmd">Reference vs.&nbsp;Copy</a> / Last Day of Class</td>
</tr>
</tbody>
</table>
<ul>
<li>= Ted on Campus for class</li>
</ul>
</section>
<section id="more-about-the-schedule" class="slide level2">
<h2>More About the Schedule</h2>
<p>All classes are on Wednesdays from 12:00-1:30 PM PST either online, or in Arnold M1-B406 (The Data Science Lounge). Connection details will be provided. Office hours related to each class day are posted below, and the invite will be sent to you.</p>
<p>In class we will be going through the notebooks hosted on Google Classroom.</p>
<p>Classes will be recorded, and those recordings will be sent to you after each class.</p>
<p>Full course page here: <a href="https://hutchdatascience.org/Intermediate_Python/" class="uri">https://hutchdatascience.org/Intermediate_Python/</a></p>
</section>
<section id="format-of-the-course" class="slide level2">
Expand Down Expand Up @@ -438,7 +483,7 @@ <h2>Break!</h2>
<h2>Dictionary</h2>
<p>A <strong>dictionary</strong> is designed as a lookup table, organized in <strong>key-value</strong> pairs. You associate the key with a particular value, and use the key to find the value.</p>
<div class="fragment">
<div id="7b7e440d" class="cell" data-execution_count="1">
<div id="ce5f920e" class="cell" data-execution_count="1">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb1"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb1-1"><a href=""></a>sentiment <span class="op">=</span> {<span class="st">'happy'</span>: <span class="dv">8</span>, <span class="st">'sad'</span>: <span class="dv">2</span>, <span class="st">'joy'</span>: <span class="fl">7.5</span>, <span class="st">'embarrassed'</span>: <span class="fl">3.6</span>, <span class="st">'restless'</span>: <span class="fl">4.1</span>, <span class="st">'apathetic'</span>: <span class="fl">3.8</span>, <span class="st">'calm'</span>: <span class="dv">7</span>}</span>
<span id="cb1-2"><a href=""></a>sentiment</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-display" data-execution_count="1">
Expand All @@ -454,7 +499,7 @@ <h2>Dictionary</h2>
</div>
<div class="fragment">
<p>You use a key to find its corresponding value:</p>
<div id="a144a640" class="cell" data-execution_count="2">
<div id="6c8ea957" class="cell" data-execution_count="2">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb3"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb3-1"><a href=""></a>sentiment[<span class="st">'joy'</span>]</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-display" data-execution_count="2">
<pre><code>7.5</code></pre>
Expand All @@ -463,7 +508,7 @@ <h2>Dictionary</h2>
</div>
<div class="fragment">
<p>You cannot use a numerical index to find values, like you did for Lists!</p>
<div id="83b7d28b" class="cell" data-execution_count="3">
<div id="2bf03ed1" class="cell" data-execution_count="3">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb5"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb5-1"><a href=""></a><span class="co">#sentiment[0]</span></span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
</div>
</div>
Expand All @@ -484,7 +529,7 @@ <h2>Rules of Dictionaries</h2>
</ul>
</div>
<div class="fragment">
<div id="f480f6d6" class="cell" data-execution_count="4">
<div id="9ae10012" class="cell" data-execution_count="4">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb6"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb6-1"><a href=""></a>duplicated_keys <span class="op">=</span> {<span class="st">'Student'</span> : <span class="dv">97</span>, <span class="st">'Student'</span>: <span class="dv">88</span>, <span class="st">'Student'</span> : <span class="dv">91</span>}</span>
<span id="cb6-2"><a href=""></a>duplicated_keys</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-display" data-execution_count="4">
Expand All @@ -493,12 +538,12 @@ <h2>Rules of Dictionaries</h2>
</div>
</div>
<div class="fragment">
<div id="b025fa77" class="cell" data-execution_count="5">
<div id="baed7d9c" class="cell" data-execution_count="5">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb8"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb8-1"><a href=""></a>child <span class="op">=</span> {<span class="st">"name"</span> : <span class="st">"Emil"</span>, <span class="st">"year"</span> : <span class="dv">2004</span>, <span class="st">"likes"</span>: [<span class="st">"jumping"</span>, <span class="st">"skating"</span>, <span class="st">"laughing"</span>]}</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
</div>
</div>
<div class="fragment">
<div id="f722d433" class="cell" data-execution_count="6">
<div id="79407544" class="cell" data-execution_count="6">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb9"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb9-1"><a href=""></a>child[<span class="st">"likes"</span>][<span class="dv">1</span>]</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-display" data-execution_count="6">
<pre><code>'skating'</code></pre>
Expand All @@ -511,34 +556,34 @@ <h2>Rules of Dictionaries</h2>
</section>
<section id="using-key-to-find-values" class="slide level2">
<h2>Using key to find values</h2>
<div id="c73555d8" class="cell" data-execution_count="7">
<div id="7fedb222" class="cell" data-execution_count="7">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb11"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb11-1"><a href=""></a>sentiment[<span class="st">'joy'</span>] </span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-display" data-execution_count="7">
<pre><code>7.5</code></pre>
</div>
</div>
<div class="fragment">
<div id="345a0174" class="cell" data-execution_count="8">
<div id="ffc517a9" class="cell" data-execution_count="8">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb13"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb13-1"><a href=""></a>sentiment[<span class="st">'joy'</span>] <span class="op">=</span> sentiment[<span class="st">'joy'</span>] <span class="op">+</span> <span class="dv">1</span></span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
</div>
</div>
<div class="fragment">
<p>If a key doesn’t exist, you will get an error:</p>
<div id="fd15e92c" class="cell" data-execution_count="9">
<div id="3c7cfbaa" class="cell" data-execution_count="9">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb14"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb14-1"><a href=""></a><span class="co">#sentiment["dog"]</span></span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
</div>
</div>
<div class="fragment">
<p>If you don’t want to run the risk of getting an error, you can specify a default value using the <code>.get()</code> method.</p>
<div id="d34dc435" class="cell" data-execution_count="10">
<div id="147cfd97" class="cell" data-execution_count="10">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb15"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb15-1"><a href=""></a>sentiment.get(<span class="st">"dog"</span>, <span class="st">"not found"</span>)</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-display" data-execution_count="10">
<pre><code>'not found'</code></pre>
</div>
</div>
</div>
<div class="fragment">
<div id="a46bbb1b" class="cell" data-execution_count="11">
<div id="98c35aa2" class="cell" data-execution_count="11">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb17"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb17-1"><a href=""></a><span class="bu">print</span>(sentiment.get(<span class="st">"dog"</span>))</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-stdout">
<pre><code>None</code></pre>
Expand All @@ -549,14 +594,14 @@ <h2>Using key to find values</h2>
<section id="adding-new-key-value-pairs" class="slide level2">
<h2>Adding new key-value pairs</h2>
<p>You can add more key-value pairs by defining it directly. If the key already exists, the mapping for that key will simply be updated.</p>
<div id="eeb903c8" class="cell" data-execution_count="12">
<div id="6462a199" class="cell" data-execution_count="12">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb19"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb19-1"><a href=""></a>sentiment[<span class="st">'dog'</span>] <span class="op">=</span> <span class="dv">5</span></span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
</div>
</section>
<section id="application-creating-a-dataframe" class="slide level2">
<h2>Application: Creating a Dataframe</h2>
<p>You can create a Dataframe using a Dictionary. The key represent column names, and the value is a List containing the column’s values:</p>
<div id="a4b3cd3e" class="cell" data-execution_count="13">
<div id="3d2980fc" class="cell" data-execution_count="13">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb20"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb20-1"><a href=""></a><span class="im">import</span> pandas <span class="im">as</span> pd</span>
<span id="cb20-2"><a href=""></a></span>
<span id="cb20-3"><a href=""></a>simple_df <span class="op">=</span> pd.DataFrame(data<span class="op">=</span>{<span class="st">'id'</span>: [<span class="st">"AAA"</span>, <span class="st">"BBB"</span>, <span class="st">"CCC"</span>, <span class="st">"DDD"</span>, <span class="st">"EEE"</span>],</span>
Expand Down Expand Up @@ -645,7 +690,7 @@ <h2>Application: Creating a Dataframe</h2>
<h2>Application: Data Recoding</h2>
<p>You want to take “case_control” column of <code>simple_df</code> and change “case” to “experiment” and “control” to “baseline”.</p>
<p>This correspondence relationship can be stored in a dictionary via <code>.replace()</code> method for Series:</p>
<div id="bf924f7b" class="cell" data-execution_count="14">
<div id="08d5fc92" class="cell" data-execution_count="14">
<div class="code-copy-outer-scaffold"><div class="sourceCode cell-code" id="cb21"><pre class="sourceCode numberSource python number-lines code-with-copy"><code class="sourceCode python"><span id="cb21-1"><a href=""></a>simple_df.case_control.replace({<span class="st">"case"</span>: <span class="st">"experiment"</span>, <span class="st">"control"</span>: <span class="st">"baseline"</span>})</span></code></pre></div><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></div>
<div class="cell-output cell-output-display" data-execution_count="14">
<pre><code>0 experiment
Expand Down
35 changes: 25 additions & 10 deletions slides/lesson1_slides.qmd
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Expand Up @@ -5,11 +5,12 @@ format:
smaller: false
scrollable: true
echo: true
standalone: true
---

## Welcome!

Please sign up for Google Classroom ([link](https://classroom.google.com/c/ODIzOTg2OTExNzU5?cjc=qfqni3j4) if you haven't already.
Please sign up for Google Classroom ([link](https://classroom.google.com/c/ODIzOTg2OTExNzU5?cjc=qfqni3j4)) if you haven't already.

## Introductions

Expand Down Expand Up @@ -43,16 +44,30 @@ Please sign up for Google Classroom ([link](https://classroom.google.com/c/ODIzO

[https://colab.research.google.com/drive/1g2ylY3-s_jX2Yf2CGkIdApvgTP4vb0Dw?usp=sharing](https://colab.research.google.com/drive/1g2ylY3-s_jX2Yf2CGkIdApvgTP4vb0Dw?usp=sharinghttps://colab.research.google.com/drive/1g2ylY3-s_jX2Yf2CGkIdApvgTP4vb0Dw?usp=sharing)

## Content of the course
## Tentative Schedule

| Week | Date | Topic |
|------|------|-------|
|1* | Jan 21 | [Fundamentals](01-Fundamentals.qmd) |
|2 | Jan 28 | [Iteration (for loops)](02-Iteration.qmd) |
|3* | Feb 4 | [Conditionals](03-Conditionals.qmd) |
|4 | Feb 11 | [Functions](04-Functions.qmd) |
|No Class | Feb 18 | Break week |
|5 | Feb 25 | [Iteration Styles](05-Iteration_Styles.qmd) |
|6* | Mar 4 | [Reference vs. Copy](06-Reference_vs_Copy.qmd) / Last Day of Class |

* = Ted on Campus for class


## More About the Schedule

All classes are on Wednesdays from 12:00-1:30 PM PST either online, or in Arnold M1-B406 (The Data Science Lounge). Connection details will be provided. Office hours related to each class day are posted below, and the invite will be sent to you.


In class we will be going through the notebooks hosted on Google Classroom.

Classes will be recorded, and those recordings will be sent to you after each class.

1. Fundamentals and Dictionaries
2. Iteration
3. Functions
4. Iteration styles
5. Assignment and References
6. Mid-winter break! (for Seattle Public Schools)
7. Modules, Wrap-up, Pizza!
8. Optional: Data-a-thon Friday March 14, Learning Communities

Full course page here: <https://hutchdatascience.org/Intermediate_Python/>

Expand Down
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