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<!DOCTYPE html>
<html lang="en">
<head>
<title>Material - CBFM</title>
<meta charset="utf-8">
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<a href="http://www.fieldmuseum.org" target="_blank"><img class="logo" src="img/Field.png" alt=""/></a>
<nav>
<ul>
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<div class="caption light animated wow fadeInDown clearfix">
<h1>Computational Biology at the Field Museum Workshop - CBFM</h1>
<p>An easy way into the world of computational biology</p>
<hr>
</div>
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<!-- <section class="testimonials wrapper">
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<h3 align="center"><font color="red">Taken the course? Please leave us <a href="https://docs.google.com/forms/d/1Sb5s4JbxeQSLF0UwEt47vvGCBMzlMlankqU2PVD3NWI/viewform?usp=send_form" target="_blank">feedback</a>!</font></h3>
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<h2>Course Material</h2>
<h3>Slides, Files, Homework</h3>
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<div class="media">
<a href="4-27.html">
<img src="img/linux1.jpg" alt=""/>
</a>
</div>
<a href="4-27.html">
<h1>Introduction to Linux Command Line 1</h1>
</a>
</li>
<li class="animated wow fadeInDown" data-wow-delay=".2s">
<div class="media">
<a href="4-29.html">
<img src="img/linux1.jpg" alt=""/>
</a>
</div>
<a href="4-29.html">
<h1>Introduction to Linux Command Line 2</h1>
</a>
</li>
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<div class="media">
<a href="5-01.html">
<img src="img/linux1.jpg" alt=""/>
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<h1>Introduction to Linux Command Line 3</h1>
</a>
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<div class="media">
<a href="5-06.html">
<img src="img/bioinfo.jpg" alt=""/>
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<a href="5-06.html"><h1>Bioinformatics Applications 1: Assembly</h1>
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<a href="5-13.html"><h1>Bioinformatics Applications 2: mapping</h1>
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<a href="5-15.html"><h1>Bioinformatics Applications 3: variant calling</h1>
</a>
</li>
</ul>
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<h2>Other Material</h2>
<h3>Pyhthon Workshop, Git Tutorial</h3>
<hr class="separator"/>
</div>
<ul class="clearfix">
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<a href="5-18.html">
<img src="img/python.jpg" alt=""/>
</a>
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<a href="5-18.html"><h1>Basic Introduction to Python 1</h1>
</a>
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<a href="5-18.html">
<img src="img/python.jpg" alt=""/>
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<a href="5-18.html"><h1>Basic Introduction to Python 2</h1>
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<img src="img/git.png" alt=""/>
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<a href="5-04.html"><h1>Basics of Git Version Control</h1>
</a>
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</ul>
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<p><b>File location:</b><br />
All files that we used in this class can be downloaded <a href="https://www.dropbox.com/sh/r9r8re2kzg9sy71/AABZEgKd36Fepv81_o6hzzJIa?dl=0" target="_blank">here</a>.
</p>
<hr class="separator"/>
<p><b>Other resources:</b><br />
There are many great websites that introduce you how to operate Linux from the command line. Much of the material presented here is taken together from various secondary sources that I encourage to discover by yourself.
</p>
<p>The comprehensive Linux course <em>LinuxFoundationX: LFS101x.2 Introduction to Linux</em> offered at <a href="https://www.edx.org/" target="_blank">edx</a> gives you a great introduction to Linux and then continuous into a deeper level of programming.
</p>
<p>Keith Bradnam & Ian Korf offer a great introduction to Unix (and Perl) specifically for biologist on their <a href="http://korflab.ucdavis.edu/Unix_and_Perl/current.html" target="_blank">website</a>.
</p>
<p>If you you want to build up general knowledge about computer programming, I recommend the highly informative as well as entertaining <a href="https://cs50.harvard.edu/" target="_blank">CS50 seminar</a> by David J. Malan.
</p>
<hr class="separator"/>
<p><b>Useful resources for git:</p></b>
<p><a href="http://git-scm.com" target="_blank">Git</a> - Primary Git SCM website.
</p>
<p><a href="https://try.github.io/levels/1/challenges/1" target="_blank">Try Git - Code School</a> - More interactive practice with Git.
</p>
<p><a href="http://git-scm.com/book/en/v2" target="_blank">Free Git Pro Book</a> - Great free in-depth book about Git.
</p>
<p><a href="https://github.com" target="_blank">Github.com</a> - Free collaborative web-based portal for Git.
</p>
<p><a href="https://bitbucket.org/" target="_blank">Bitbucket.org</a> - Free collaborative web-based protal for Git.
</p>
<hr class="separator"/>
<p><b>More help for programming with Python:</p></b>
<p><a href="http://anandology.com/python-practice-book" target="_blank">Python Practice Book</a> - Comprehensive Python Manual.
</p>
<p><a href="https://docs.python.org/2/library/stdtypes.html" target="_blank">Python data types</a> - Guide through all Python data types.
</p>
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<p><a href="http://www.felixgrewe.de" target="_blank">Felix Grewe</a> 2015 | Licensed under a <a href="https://creativecommons.org/licenses/by-nc-nd/3.0/us/">Creative Commons 3.0 License</a>.</p>
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