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fix windows _getting_started
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fabridamicelli committed Oct 20, 2024
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5 changes: 3 additions & 2 deletions chapters/01_getting_started.ipynb
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"```\n",
"\n",
"**Windows**\n",
"Make sure you are using **powershell**!\n",
"\n",
"```bash\n",
"powershell -ExecutionPolicy ByPass -c \"irm https://astral.sh/uv/install.ps1 | iex\"\n",
"```\n",
"Warning: Maybe you need to have administrator permission to get this working. \n",
"Try that out if the plain run does not work.\n",
"\n",
"\n",
"That should be enough, but for more details you can follow detailed instructions [here](https://docs.astral.sh/uv/getting-started/installation/)."
]
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139 changes: 0 additions & 139 deletions chapters/081_pandas.ipynb
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156 changes: 156 additions & 0 deletions chapters/09_plotting.ipynb
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158 changes: 37 additions & 121 deletions chapters/lab_explore_data_solutions.ipynb
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3 changes: 1 addition & 2 deletions docs/01_getting_started.html
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Expand Up @@ -390,9 +390,8 @@ <h2 data-number="1.2" class="anchored" data-anchor-id="install-uv"><span class="
<p>Run only one of these commands in your terminal - pick according to your operating system:</p>
<p><strong>Linux and macOS</strong></p>
<div class="sourceCode" id="cb1"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="ex">curl</span> <span class="at">-LsSf</span> https://astral.sh/uv/install.sh <span class="kw">|</span> <span class="fu">sh</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<p><strong>Windows</strong></p>
<p><strong>Windows</strong> Make sure you are using <strong>powershell</strong>!</p>
<div class="sourceCode" id="cb2"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a><span class="ex">powershell</span> <span class="at">-ExecutionPolicy</span> ByPass <span class="at">-c</span> <span class="st">"irm https://astral.sh/uv/install.ps1 | iex"</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<p>Warning: Maybe you need to have administrator permission to get this working. Try that out if the plain run does not work.</p>
<p>That should be enough, but for more details you can follow detailed instructions <a href="https://docs.astral.sh/uv/getting-started/installation/">here</a>.</p>
</section>
<section id="working-on-a-project" class="level2" data-number="1.3">
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119 changes: 1 addition & 118 deletions docs/081_pandas.html
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}</script>
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</head>
Expand Down Expand Up @@ -393,86 +356,6 @@ <h1 class="title"><span class="chapter-number">15</span>&nbsp; <span class="chap
<p>Check out the pandas getting-started documentation <a href="https://pandas.pydata.org/docs/getting_started/index.html#getting-started">here</a></p>
<p>Here’s short introduction by the very author of the library:</p>
<div class="quarto-video ratio ratio-16x9"><iframe data-external="1" src="https://www.youtube.com/embed/_T8LGqJtuGc" title="" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen=""></iframe></div>
<div id="7617b9b8-455a-44f0-9856-8b2e248d11a0" class="cell" data-execution_count="1">
<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> seaborn <span class="im">as</span> sns</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<div id="91cfdd53-1b65-4b02-b0f8-5bd227b6da4e" class="cell" data-execution_count="2">
<div class="sourceCode cell-code" id="cb2"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a>df <span class="op">=</span> sns.load_dataset(<span class="st">"fmri"</span>)</span>
<span id="cb2-2"><a href="#cb2-2" aria-hidden="true" tabindex="-1"></a>df.head()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-display" data-execution_count="2">
<div>
<div>


<table class="dataframe table table-sm table-striped small" data-quarto-postprocess="true" data-border="1">
<thead>
<tr class="header">
<th data-quarto-table-cell-role="th"></th>
<th data-quarto-table-cell-role="th">subject</th>
<th data-quarto-table-cell-role="th">timepoint</th>
<th data-quarto-table-cell-role="th">event</th>
<th data-quarto-table-cell-role="th">region</th>
<th data-quarto-table-cell-role="th">signal</th>
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<tr class="odd">
<td data-quarto-table-cell-role="th">0</td>
<td>s13</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.017552</td>
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<td data-quarto-table-cell-role="th">1</td>
<td>s5</td>
<td>14</td>
<td>stim</td>
<td>parietal</td>
<td>-0.080883</td>
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<tr class="odd">
<td data-quarto-table-cell-role="th">2</td>
<td>s12</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.081033</td>
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<td data-quarto-table-cell-role="th">3</td>
<td>s11</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.046134</td>
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<tr class="odd">
<td data-quarto-table-cell-role="th">4</td>
<td>s10</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.037970</td>
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</div>
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<div id="97350317-64f0-48cf-b73d-b14e2364ce87" class="cell" data-execution_count="35">
<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>sns.lineplot(df, x<span class="op">=</span><span class="st">"timepoint"</span>, y<span class="op">=</span><span class="st">"signal"</span>, marker<span class="op">=</span><span class="st">"."</span>, hue<span class="op">=</span><span class="st">"region"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-display">
<div>
<figure class="figure">
<p><img src="081_pandas_files/figure-html/cell-4-output-1.png" class="img-fluid figure-img"></p>
</figure>
</div>
</div>
</div>
<section id="exercises" class="level2" data-number="15.1">
<h2 data-number="15.1" class="anchored" data-anchor-id="exercises"><span class="header-section-number">15.1</span> Exercises</h2>
<ul>
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91 changes: 87 additions & 4 deletions docs/09_plotting.html
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</style>


<script src="site_libs/quarto-nav/quarto-nav.js"></script>
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Expand Down Expand Up @@ -597,12 +600,92 @@ <h2 data-number="16.2" class="anchored" data-anchor-id="seaborn"><span class="he
<div id="e1873ded-3509-41f8-9426-2f91ac2bc468" class="cell" data-execution_count="14">
<div class="sourceCode cell-code" id="cb18"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb18-1"><a href="#cb18-1" aria-hidden="true" tabindex="-1"></a>sns.set_theme(style<span class="op">=</span><span class="st">"dark"</span>, font_scale<span class="op">=</span><span class="fl">1.4</span>) <span class="co"># this has global effects</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<div id="c35acd2a-ca30-4bbd-8a01-79cbc19b8e02" class="cell" data-execution_count="1">
<div class="sourceCode cell-code" id="cb19"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb19-1"><a href="#cb19-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> seaborn <span class="im">as</span> sns</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
</div>
<div id="7f36da8e-2f9e-45ae-ae58-471f2e2f1572" class="cell" data-execution_count="2">
<div class="sourceCode cell-code" id="cb20"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb20-1"><a href="#cb20-1" aria-hidden="true" tabindex="-1"></a>df <span class="op">=</span> sns.load_dataset(<span class="st">"fmri"</span>)</span>
<span id="cb20-2"><a href="#cb20-2" aria-hidden="true" tabindex="-1"></a>df.head()</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-display" data-execution_count="2">
<div>
<div>


<table class="dataframe table table-sm table-striped small" data-quarto-postprocess="true" data-border="1">
<thead>
<tr class="header">
<th data-quarto-table-cell-role="th"></th>
<th data-quarto-table-cell-role="th">subject</th>
<th data-quarto-table-cell-role="th">timepoint</th>
<th data-quarto-table-cell-role="th">event</th>
<th data-quarto-table-cell-role="th">region</th>
<th data-quarto-table-cell-role="th">signal</th>
</tr>
</thead>
<tbody>
<tr class="odd">
<td data-quarto-table-cell-role="th">0</td>
<td>s13</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.017552</td>
</tr>
<tr class="even">
<td data-quarto-table-cell-role="th">1</td>
<td>s5</td>
<td>14</td>
<td>stim</td>
<td>parietal</td>
<td>-0.080883</td>
</tr>
<tr class="odd">
<td data-quarto-table-cell-role="th">2</td>
<td>s12</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.081033</td>
</tr>
<tr class="even">
<td data-quarto-table-cell-role="th">3</td>
<td>s11</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.046134</td>
</tr>
<tr class="odd">
<td data-quarto-table-cell-role="th">4</td>
<td>s10</td>
<td>18</td>
<td>stim</td>
<td>parietal</td>
<td>-0.037970</td>
</tr>
</tbody>
</table>

</div>
</div>
</div>
</div>
<div id="135ed828-dd1e-48ad-b77e-70b801ab3400" class="cell" data-execution_count="35">
<div class="sourceCode cell-code" id="cb21"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb21-1"><a href="#cb21-1" aria-hidden="true" tabindex="-1"></a>sns.lineplot(df, x<span class="op">=</span><span class="st">"timepoint"</span>, y<span class="op">=</span><span class="st">"signal"</span>, marker<span class="op">=</span><span class="st">"."</span>, hue<span class="op">=</span><span class="st">"region"</span>)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-display">
<div>
<figure class="figure">
<p><img src="09_plotting_files/figure-html/cell-18-output-1.png" class="img-fluid figure-img"></p>
</figure>
</div>
</div>
</div>
<div id="8926774e-e0bc-4f87-974b-d3059636adb6" class="cell" data-execution_count="15">
<div class="sourceCode cell-code" id="cb19"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb19-1"><a href="#cb19-1" aria-hidden="true" tabindex="-1"></a>plot_images(data)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="sourceCode cell-code" id="cb22"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb22-1"><a href="#cb22-1" aria-hidden="true" tabindex="-1"></a>plot_images(data)</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
<div class="cell-output cell-output-display">
<div>
<figure class="figure">
<p><img src="09_plotting_files/figure-html/cell-16-output-1.png" class="img-fluid figure-img"></p>
<p><img src="09_plotting_files/figure-html/cell-21-output-1.png" class="img-fluid figure-img"></p>
</figure>
</div>
</div>
Expand Down Expand Up @@ -669,7 +752,7 @@ <h2 data-number="16.2" class="anchored" data-anchor-id="seaborn"><span class="he
<section id="exercises" class="level2" data-number="16.3">
<h2 data-number="16.3" class="anchored" data-anchor-id="exercises"><span class="header-section-number">16.3</span> Exercises</h2>
<ol type="1">
<li><p>Use numpy to create 4 arrays of numbers drawn from 4 different distributions: uniform, normal, lognormal and exponential. Each array should have of 100000 samples. Use matplotlib to plot a grid of 2x2 subplots, with one histogram on each subplot. Hint: Look at numpy’s submodule <code>random</code>.</p></li>
<li><p>Use numpy to create 4 arrays of numbers drawn from 4 different distributions: uniform, normal, lognormal and exponential. Each array should have of 100000 samples. Use matplotlib to plot a grid of 2x2 subplots, with one histogram on each subplot. Each histogram should have a different color. Hint: Look at numpy’s submodule <code>random</code>.</p></li>
<li><p>Pick one interesting example of the <a href="http://seaborn.pydata.org/examples/index.html">Seaborn gallery</a> and reproduce it on your computer. Change 1 or 2 parameters of the plot, for example, some color or order of variables, remove/add a variable. If you have own data with a similar shape, plot those!</p></li>
</ol>

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