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interactive-python-slides.html
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<!DOCTYPE html>
<html>
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<title>SCUG Presentation slides</title>
<script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>
<script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/2.0.3/jquery.min.js"></script>
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:center"> Learning Python Programming Language with Interactive Computing Framework</h1><p><img src="https://aptonic.com/blog/wp-content/uploads/2015/08/python-logo.png" alt="logo-python" style="float:middle;width:250px;height:200px"></p>
<h1 style="text-align:center;font-family:calibri;color:blue;font-size:200%;"> Som Bohora, Department of Pediatrics </h1>
<h1 style="text-align:center;font-family:calibri;color:black;font-size:150%;"> OUHSC, Statistical Computing User Group <br>
Biomedical and Behavioral Methodology Core (BBMC) <br>
Tuesday, March 01, 2016 </h1>
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left"> Outline of presentation</h1><p><h1 style="text-align:left;font-family:calibri;color:black;font-size:150%;font-weight:normal"></p>
<ul>
<li>Python 3 download and installation <br></li>
<li>Key differences between Python 2 and Python 3 <br></li>
<li>Interactive computing and dynamic reporting with IPython/Jupyter Notebook <br></li>
<li>Python tutorial <br><ul>
<li>Why Python? <br></li>
<li>Variables, expressions, and statements <br></li>
<li>Conditional executions <br></li>
<li>Functions <br></li>
<li>Iteration <br></li>
<li>Standard data types <br><ul>
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<li>Lists, Tuples, and dictionaries <br></li>
</ul>
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</ul>
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<li>Files (working with <code>.txt</code> files)</li>
<li>Compare some python commands with R program <br></li>
<li>References and resources <br></li>
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:300%;text-align:left"> Python 3 & Jupyter Notebook Installation</h1>
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<ul>
<li>Python is a high-level, general-purpose, interpreted, and object-oriented scripting language<br></li>
<li>Developed by Guido van Rossum in the late eighties and early nineties in the Netherlands<br></li>
<li>Derived from many other languages, including C, C++, and other scripting languages<br></li>
<li><p>It is copyrighted and is now available under the GNU General Public License (GPL)<br></p>
</li>
<li><p>No need of type declaration of variables, parameters, functions or methods<br></p>
</li>
<li>Python source files use <strong><code>.py</code></strong> extension and run with command prompt by <strong><code>python filename.py</code></strong><br></li>
<li>Python uses 0-based index origin</li>
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<p><h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left"> Python author: Guido van Rossum</h1>
<img src="https://upload.wikimedia.org/wikipedia/commons/6/66/Guido_van_Rossum_OSCON_2006.jpg" alt="Guido van Rossum" style="float:left;width:400px;height:400px;"></p>
<p><img src="https://www.python.org/~guido/images/license.jpg" alt="lecense" style="float:middle;width:304px;height:300px"></p>
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<p><h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left"> Python features</h1></p>
<p><h1 style="text-align:left;font-family:calibri;color:black;font-size:150%;font-weight:normal"></p>
<ul>
<li><strong>Easy-to-learn</strong>: few keywords,simple structure, and clear syntax. <br></li>
<li><strong>Easy-to-read</strong>: much more clearly defined and visible to the eyes. <br></li>
<li><strong>Easy-to-maintain</strong>: source code is fairly easy-to-maintain.<br></li>
<li><strong>A broad standard library</strong>: very portable and cross-platform compatible<br></li>
<li><strong>Interactive Mode</strong><br></li>
<li><strong>Portable</strong>: run and interface on a wide variety of platforms<br></li>
<li><strong>Extendable</strong>: one can add low-level modules to the Python interpreter for efficiency.<br></li>
<li><strong>Databases</strong>: provides interfaces to all major commercial databases.<br></li>
<li><strong>Scalable</strong>: provides a better structure and support for large programs than shell.</li>
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<p><h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left"> Why Python?</h1></p>
<p><h1 style="text-align:left;font-family:calibri;color:black;font-size:150%;font-weight:normal"></p>
<ul>
<li>A great experience on Day 1 (minimal set up, shallow learning curve, written in plain English, Errors appear on runtime)<br></li>
<li>Ability to program on the web<br></li>
<li>Ability to program desktop applications<br></li>
<li>Increasing use in data science<br></li>
<li>Marketable professional skills<br></li>
<li>Community support<br></li>
<li>It can be easily integrated with C, C++, Java, and other languages</li>
</ul>
<h2 id="Python-IDE">Python IDE<a class="anchor-link" href="#Python-IDE">¶</a></h2><p><h1 style="text-align:left;font-family:calibri;color:black;font-size:150%;font-weight:normal">
PyDev with Eclipse, Komodo, Emacs, Vim, TextMate, Gedit, python IDLE, NotePad++, PyCharm</p>
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left"> Key differences in Python 2.x and 3.x</h1><table>
<thead><tr>
<th>Parameters</th>
<th style="text-align:center">Python 2.x</th>
<th style="text-align:right">Python 3.x</th>
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<td>print</td>
<td style="text-align:center"><code>print 'hello'</code></td>
<td style="text-align:right"><code>print('hello')</code></td>
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<tr>
<td>integer division</td>
<td style="text-align:center"><code>print '3//2=', 3/2</code></td>
<td style="text-align:right"><code>print('3//2=', 1)</code></td>
</tr>
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<td>xrange</td>
<td style="text-align:center"><code>xrange</code></td>
<td style="text-align:right"><code>range</code></td>
</tr>
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<td>user input</td>
<td style="text-align:center"><code>raw_input</code></td>
<td style="text-align:right"><code>input</code></td>
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<td>iterable objects type</td>
<td style="text-align:center"><code>list</code></td>
<td style="text-align:right"><code>range</code></td>
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</tbody>
</table>
<p>NOTE:</p>
<div class="highlight"><pre><span></span><span class="n">Use</span> <span class="sb">`from __future__ import division`</span> <span class="n">within</span> <span class="mf">2.</span><span class="n">x</span> <span class="n">to</span> <span class="n">do</span> <span class="sb">`3.x`</span> <span class="n">way</span>
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left"> Variables, expressions and statements</h1>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="c1"># This is a comment</span>
<span class="sd">"""print('Hello World')</span>
<span class="sd">print(type("string"))</span>
<span class="sd"># `=` is an assignment statement</span>
<span class="sd">x, y, z = 1, 3.1415, 'python'</span>
<span class="sd">print(type(x)); print(type(y)); print(type(z))</span>
<span class="sd">"""</span>
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<pre>'print(\'Hello World\')\n\nprint(type("string"))\n\n# `=` is an assignment statement\n\nx, y, z = 1, 3.1415, \'python\'\nprint(type(x)); print(type(y)); print(type(z))\n'</pre>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="c1"># Variable names -- Python is case-sensitive</span>
<span class="c1"># 76value = 'big parade'</span>
<span class="c1"># more@ = 100</span>
<span class="c1"># class = 'Biostat'</span>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="kn">import</span> <span class="nn">keyword</span>
<span class="c1"># print(keyword.kwlist)</span>
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left">
Contd variables, expressions and statements</h1>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="n">x</span><span class="o">=</span><span class="mi">5</span> <span class="p">;</span> <span class="nb">print</span><span class="p">(</span><span class="n">x</span><span class="o">+</span><span class="mi">7</span><span class="p">)</span>
<span class="nb">print</span><span class="p">(</span><span class="n">x</span> <span class="o">%</span> <span class="mi">2</span><span class="p">)</span> <span class="c1"># % modulus operator</span>
<span class="n">first</span> <span class="o">=</span> <span class="mi">10</span> <span class="p">;</span> <span class="n">second</span> <span class="o">=</span> <span class="mi">15</span> <span class="p">;</span> <span class="nb">print</span><span class="p">(</span> <span class="n">first</span><span class="o">+</span><span class="n">second</span> <span class="p">)</span>
<span class="n">firstString</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span> <span class="n">first</span> <span class="p">);</span> <span class="n">secondString</span> <span class="o">=</span> <span class="nb">str</span><span class="p">(</span> <span class="n">second</span> <span class="p">)</span>
<span class="nb">print</span><span class="p">(</span> <span class="nb">type</span><span class="p">(</span> <span class="n">firstString</span> <span class="p">)</span> <span class="p">)</span>
<span class="nb">print</span><span class="p">(</span><span class="n">firstString</span> <span class="o">+</span> <span class="n">secondString</span><span class="p">)</span>
<span class="c1"># User input </span>
<span class="c1"># whatCourse = input("what course is this?\n") # "\n" is newline character</span>
<span class="c1"># print(whatCourse)</span>
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<pre>12
1
25
<class 'str'>
1015
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Conditional execution </h1>
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<h2 id="Boolean-expressions">Boolean expressions<a class="anchor-link" href="#Boolean-expressions">¶</a></h2>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="nb">print</span><span class="p">(</span><span class="mi">5</span> <span class="o">==</span> <span class="mi">5</span><span class="p">)</span> <span class="p">;</span> <span class="nb">print</span><span class="p">(</span><span class="mi">5</span> <span class="o">==</span> <span class="mi">6</span><span class="p">)</span> <span class="p">;</span> <span class="nb">type</span><span class="p">(</span><span class="kc">True</span><span class="p">)</span>
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<pre>True
False
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<pre>bool</pre>
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<h2 id="Comparison-operators">Comparison operators<a class="anchor-link" href="#Comparison-operators">¶</a></h2>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="n">x</span> <span class="o">=</span> <span class="mi">5</span><span class="p">;</span> <span class="n">y</span> <span class="o">=</span> <span class="mi">6</span><span class="p">;</span> <span class="n">x</span> <span class="o">!=</span> <span class="n">y</span><span class="p">;</span> <span class="n">x</span> <span class="o">></span> <span class="n">y</span><span class="p">;</span> <span class="n">x</span> <span class="o">>=</span> <span class="n">y</span><span class="p">;</span> <span class="n">x</span> <span class="ow">is</span> <span class="n">y</span><span class="p">;</span> <span class="n">x</span> <span class="ow">is</span> <span class="ow">not</span> <span class="n">y</span>
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<pre>True</pre>
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<h2 id="Logical-operators">Logical operators<a class="anchor-link" href="#Logical-operators">¶</a></h2>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="n">x</span> <span class="o">></span> <span class="mi">0</span> <span class="ow">and</span> <span class="n">x</span> <span class="o"><</span> <span class="mi">10</span>
<span class="nb">print</span><span class="p">(</span><span class="ow">not</span> <span class="p">(</span><span class="n">x</span> <span class="o">></span> <span class="n">y</span><span class="p">))</span> <span class="c1"># Is x not greater than y?</span>
<span class="n">x</span><span class="o">%</span><span class="k">2</span> == 0 or x%3 == 0
<span class="mi">17</span> <span class="ow">and</span> <span class="kc">True</span> <span class="c1"># any non-zero number is treated as `True`</span>
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<pre>True
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<pre>True</pre>
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Conditional execution contd </h1>
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<h2 id="Conditional-execution">Conditional execution<a class="anchor-link" href="#Conditional-execution">¶</a></h2>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="c1"># x = -1; y =6</span>
<span class="k">if</span> <span class="n">x</span> <span class="o"><</span> <span class="mi">0</span><span class="p">:</span>
<span class="nb">print</span><span class="p">(</span><span class="s2">"x is positive"</span><span class="p">)</span>
<span class="k">else</span><span class="p">:</span>
<span class="k">pass</span>
<span class="k">if</span> <span class="n">x</span> <span class="o"><</span> <span class="n">y</span><span class="p">:</span>
<span class="nb">print</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="s2">"is less than"</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
<span class="k">elif</span> <span class="n">x</span> <span class="o">></span> <span class="n">y</span> <span class="p">:</span>
<span class="nb">print</span><span class="p">(</span><span class="n">x</span><span class="p">,</span> <span class="s2">"is greater than"</span><span class="p">,</span> <span class="n">y</span><span class="p">)</span>
<span class="k">else</span><span class="p">:</span>
<span class="nb">print</span><span class="p">(</span><span class="s2">"x and y are equal"</span><span class="p">)</span>
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<pre>x is positive
-1 is less than 6
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left">
Standard data types </h1>
<h1 style="font-size:500"> Numbers and Strings </h1>
<h1 style="font-size:500"> Lists </h1>
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<p><h1 style="text-align:left;font-family:calibri;color:black;font-size:175%;font-weight:normal"></p>
<ul>
<li>A list is a sequence with elements or items of any type seprated by commas</li>
<li><code>[]</code> or <code>list()</code> is used to create lists</li>
<li>Lists are mutable</li>
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Data types contd </h1>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="kn">import</span> <span class="nn">math</span>
<span class="n">lst</span> <span class="o">=</span> <span class="p">[</span><span class="mi">2</span><span class="p">,</span><span class="mi">3</span><span class="p">,</span><span class="mi">4</span><span class="p">,</span><span class="mi">1</span><span class="p">,</span> <span class="s1">'spam'</span><span class="p">,</span> <span class="mf">3.24</span><span class="p">,</span> <span class="n">math</span><span class="o">.</span><span class="n">pi</span><span class="p">];</span> <span class="nb">print</span><span class="p">(</span><span class="n">x</span><span class="p">)</span>
<span class="n">listWithinList</span> <span class="o">=</span> <span class="p">[</span><span class="s1">'hello'</span><span class="p">,</span> <span class="mf">2.0</span><span class="p">,</span> <span class="mi">3</span><span class="p">,</span> <span class="p">[</span><span class="mi">3</span><span class="p">,</span><span class="mi">6</span><span class="p">,</span><span class="mi">5</span><span class="p">]]</span>
<span class="n">empty</span> <span class="o">=</span> <span class="p">[]</span>
<span class="nb">print</span><span class="p">(</span><span class="n">lst</span><span class="p">,</span> <span class="n">listWithinList</span><span class="p">,</span> <span class="n">empty</span><span class="p">)</span>
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<pre>[2, 3, 4, 1, 'spam', 3.24, 3.141592653589793]
[2, 3, 4, 1, 'spam', 3.24, 3.141592653589793] ['hello', 2.0, 3, [3, 6, 5]] []
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<div class=" highlight hl-ipython3"><pre><span></span><span class="c1"># Lists are mutable</span>
<span class="n">listWithinList</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span> <span class="o">=</span> <span class="s2">"Hi Som"</span><span class="p">;</span> <span class="nb">print</span><span class="p">(</span><span class="n">listWithinList</span><span class="p">)</span>
<span class="c1"># `in` operator</span>
<span class="s2">"Hi Som"</span> <span class="ow">in</span> <span class="n">listWithinList</span>
<span class="c1"># looping through a list</span>
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="n">lst</span><span class="p">:</span>
<span class="nb">print</span><span class="p">(</span><span class="n">i</span><span class="p">)</span>
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<pre>['Hi Som', 2.0, 3, [3, 6, 5]]
2
3
4
1
spam
3.24
3.141592653589793
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<h1 style ="background-color:gold;color:blue;font-family:calibri;font-size:250%;text-align:left">
Data types contd </h1>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="c1"># Traversing a list</span>
<span class="n">numbers</span> <span class="o">=</span> <span class="p">[</span><span class="mi">3</span><span class="p">,</span><span class="mi">5</span><span class="p">,</span><span class="mi">2</span><span class="p">]</span>
<span class="k">for</span> <span class="n">i</span> <span class="ow">in</span> <span class="nb">range</span><span class="p">(</span><span class="nb">len</span><span class="p">(</span><span class="n">numbers</span><span class="p">)):</span>
<span class="n">numbers</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">=</span> <span class="n">numbers</span><span class="p">[</span><span class="n">i</span><span class="p">]</span> <span class="o">*</span> <span class="mi">2</span>
<span class="nb">print</span><span class="p">(</span><span class="n">numbers</span><span class="p">)</span>
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<pre>[6, 10, 4]
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<div class=" highlight hl-ipython3"><pre><span></span><span class="c1"># List operations</span>
<span class="n">a</span> <span class="o">=</span> <span class="p">[</span><span class="mi">1</span><span class="p">,</span><span class="mi">2</span><span class="p">,</span><span class="mi">3</span><span class="p">,</span><span class="mi">5</span><span class="p">,</span><span class="mi">4</span><span class="p">,[</span><span class="mi">2</span><span class="p">,</span><span class="mi">5</span><span class="p">,</span><span class="mi">1</span><span class="p">]];</span> <span class="n">b</span> <span class="o">=</span> <span class="p">[</span><span class="mi">4</span><span class="p">,</span><span class="mi">5</span><span class="p">,</span><span class="mi">9</span><span class="p">]</span>
<span class="nb">print</span><span class="p">(</span><span class="n">a</span> <span class="o">+</span> <span class="n">b</span><span class="p">)</span>
<span class="nb">print</span><span class="p">([</span><span class="mi">0</span><span class="p">]</span><span class="o">*</span><span class="mi">4</span><span class="p">)</span>
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<pre>[1, 2, 3, 5, 4, [2, 5, 1], 4, 5, 9]
[0, 0, 0, 0]
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Data types contd </h1>
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<div class=" highlight hl-ipython3"><pre><span></span><span class="c1"># List slices</span>
<span class="nb">print</span><span class="p">(</span><span class="n">a</span><span class="p">[:])</span>
<span class="nb">print</span><span class="p">(</span><span class="n">a</span><span class="p">[:</span><span class="mi">3</span><span class="p">])</span> <span class="c1"># non-inclusive end-point, this gives 0,1,2 elements</span>
<span class="nb">print</span><span class="p">(</span><span class="n">a</span><span class="p">[</span><span class="mi">2</span><span class="p">:])</span>
<span class="n">a</span><span class="p">[</span><span class="mi">1</span><span class="p">:</span><span class="mi">3</span><span class="p">]</span> <span class="o">=</span> <span class="p">[</span><span class="mi">777</span><span class="p">,</span> <span class="mi">999</span><span class="p">];</span> <span class="nb">print</span><span class="p">(</span><span class="n">a</span><span class="p">)</span>
<span class="c1"># Slice a list within a list</span>
<span class="nb">print</span><span class="p">(</span><span class="n">a</span><span class="p">[</span><span class="mi">5</span><span class="p">][</span><span class="mi">1</span><span class="p">])</span>
<span class="c1"># List methods</span>
<span class="n">c</span> <span class="o">=</span> <span class="n">a</span><span class="p">[:</span><span class="mi">4</span><span class="p">]</span>
<span class="n">c</span><span class="o">.</span><span class="n">append</span><span class="p">(</span><span class="mi">888</span><span class="p">);</span> <span class="nb">print</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
<span class="c1"># c.insert(2, 2222222); print(c) # select a index where you want to insert</span>
<span class="c1"># sort lists</span>
<span class="n">c</span><span class="o">.</span><span class="n">sort</span><span class="p">(</span><span class="n">reverse</span><span class="o">=</span><span class="kc">True</span><span class="p">);</span> <span class="nb">print</span><span class="p">(</span><span class="n">c</span><span class="p">)</span>
<span class="nb">sorted</span><span class="p">(</span><span class="n">c</span><span class="p">,</span> <span class="n">reverse</span><span class="o">=</span><span class="kc">True</span><span class="p">)</span>
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<pre>[1, 777, 999, 5, 4, [2, 5, 1]]
[1, 777, 999]
[999, 5, 4, [2, 5, 1]]
[1, 777, 999, 5, 4, [2, 5, 1]]
5
[1, 777, 999, 5, 888]
[999, 888, 777, 5, 1]
[999, 777, 5, 1]
[777, 5, 1]
3
777
783
['P', 'y', 't', 'h', 'o', 'n', ' ', 'i', 's', ' ', 'a', ' ', 'm', 'a', 'g', 'i', 'c']