Difference between revisions of "Team:Edinburgh UG/Files"

 
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    <div id="custom-bootstrap-menu" class="navbar navbar-default navbar-fixed-top" role="navigation">
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                      <li>
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               <div class="container">
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                          <a href="https://2016.igem.org/Team:Edinburgh_UG">Home</a>
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                  <!-- Brand and toggle get grouped for better mobile display -->
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                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Team<span class="caret"></span></a>
−
                          <span class="sr-only">Toggle navigation</span>
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−
                          <span class="icon-bar"></span>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Team">Team</a></li>
−
                          <span class="icon-bar"></span>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Attribution">Attribution</a></li>
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                          <span class="icon-bar"></span>
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                          <img src="https://static.igem.org/mediawiki/2016/9/92/Edinburgh_logo2_MINI.png" alt="">
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                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Human Practices<span class="caret"></span></a>
−
                      </a>
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                        <ul class="dropdown-menu" role="menu">
−
                  </div>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Overview">Overview</a> </li>
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                  <!-- Collect the nav links, forms, and other content for toggling -->
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/HP/Silver">Silver</a> </li>
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                  <div class="collapse navbar-collapse" id="bs-example-navbar-collapse-1">
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/HP/Gold">Gold</a> </li>
−
                      <ul class="nav navbar-nav">
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Medal_Criteria">Medal Criteria</a> </li>
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                          <li>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Integrated_Practices">Integrated Practices</a> </li>
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                              <a href="https://2016.igem.org/Team:Edinburgh_UG">Home</a>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Engagement">Engagement</a> </li>
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                          </li>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Ethics">Ethics</a> </li>
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                          <li class="dropdown">
+
                           <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Mary_Queen_of _Scots">Mary Queen of Scots</a> </li>
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                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Team<span class="caret"></span></a>
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                            <ul class="dropdown-menu" role="menu">
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                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Team">Team</a></li>
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                      <li class="dropdown">
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                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Attribution">Attribution</a></li>
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                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Project<span class="caret"></span></a>
−
                            </ul>
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                        <ul class="dropdown-menu" role="menu">
−
                          </li>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Description">Description</a></li>
−
                          <li class="dropdown">
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Design">Design</a></li>
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Human Practices<span class="caret"></span></a>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Proof">Proof of Concept</a></li>
−
                            <ul class="dropdown-menu" role="menu">
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Demonstrate">Demonstrate</a></li>
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                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Silver">Silver</a> </li>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Notebook">Notebook</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Gold">Gold</a> </li>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Protocols">Protocols</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Integrated_Practices">Integrated Practices</a> </li>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Limitations">Advantages and Limitations</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Engagement">Engagement</a> </li>
+
                        </ul>
−
                            </ul>
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                      </li>
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                           </li>
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                      <li class="dropdown">
−
                          <li class="dropdown">
+
                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Informatics<span class="caret"></span></a>
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                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Project<span class="caret"></span></a>
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                        <ul class="dropdown-menu" role="menu">
−
                            <ul class="dropdown-menu" role="menu">
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Lexicon_Encoding">Lexicon Encoding</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Description">Description</a></li>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Error_Correction">Error Correction</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Design">Design</a></li>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Encryption">Encryption</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Proof">Proof of Concept</a></li>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Files">Files</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Demonstrate">Demonstrate</a></li>
+
                        </ul>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Notebook">Notebook</a></li>
+
                      </li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Babbled2.0">Babbled2.0</a></li>
+
                      <li class="dropdown">
−
                            </ul>
+
                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Parts<span class="caret"></span></a>
−
                          </li>
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                        <ul class="dropdown-menu" role="menu">
−
                          <li class="dropdown">
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Basic_Part">Basic Parts</a></li>
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Informatics<span class="caret"></span></a>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Composite_Part">Composite Parts</a></li>
−
                            <ul class="dropdown-menu" role="menu">
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Part_Collection">Part Collection</a> </li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Lexicon_Encoding">Lexicon Encoding</a></li>
+
                        </ul>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Error_Correction">Error Correction</a></li>
+
                      </li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Encryption">Encryption</a></li>
+
                      <li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Files">Files</a></li>
+
                          <a href="https://2016.igem.org/Team:Edinburgh_UG/Collaboration">Collaboration</a>
−
                            </ul>
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                      </li>
−
                          </li>
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                      <li class="dropdown">
−
                          <li class="dropdown">
+
                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Awards<span class="caret"></span></a>
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Parts<span class="caret"></span></a>
+
                        <ul class="dropdown-menu" role="menu">
−
                            <ul class="dropdown-menu" role="menu">
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Software">Software</a> </li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Basic_Part">Basic Parts</a></li>
+
                        </ul>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Composite_Part">Composite Parts</a></li>
+
                      </li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Part_Collection">Part Collection</a> </li>
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                      <li class="dropdown">
−
                            </ul>
+
                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Safety<span class="caret"></span></a>
−
                          </li>
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                        <ul class="dropdown-menu" role="menu">
−
                          <li>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Safety/Biological Safety">Biological Safety</a></li>
−
                              <a href="#">Collaboration</a>
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                        </ul>
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                          </li>
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                      </li>
−
                          <li class="dropdown">
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                      <li class="dropdown">
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Awards<span class="caret"></span></a>
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                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Interlab<span class="caret"></span></a>
−
                            <ul class="dropdown-menu" role="menu">
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                        <ul class="dropdown-menu" role="menu">
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Entrepreneurship">Entrepreneurship</a></li>
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                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Plate_Reader">Plate Reader</a></li>
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Software">Software</a> </li>
+
                        </ul>
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                            </ul>
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                      </li>
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                          </li>
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                  </ul>
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                          <li class="dropdown">
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−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Safety<span class="caret"></span></a>
+
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                            <ul class="dropdown-menu" role="menu">
+
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Safety">Lab Safety</a></li>
+
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Biological Safety">Biological Safety</a></li>
+
−
                            </ul>
+
−
                          </li>
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                          <li class="dropdown">
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                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Interlab<span class="caret"></span></a>
+
−
                            <ul class="dropdown-menu" role="menu">
+
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Plate_Reader">Plate Reader</a></li>
+
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                            </ul>
+
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                          </li>
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</div>
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     <!-- End of menu  -->
 
     <!-- End of menu  -->
  
  
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   <header class="image-bg-fluid-height">
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   <div class="row">
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       <img class="img-responsive img-center" src="https://static.igem.org/mediawiki/2016/d/d0/Babbled_logo.png" alt="">
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      <div class="headline">
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              <h1>The University of Edinburgh Undergraduate iGEM team 2016 presents:</h1>
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              <h2>The Next Generation of Information Storage</h2>
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          </div>
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   </div>
  
 
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      <div class="col-sm-6">
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        <centre style="font-size:160%;">Here you can find zip files containing all the code for the BabblED software along with handy documentation about how to install the programs. Alternatively all the code is also available completely open source on our <a href="https://github.com/Edinburgh-iGEM2016/" target="_self">Github</a>or if you would just like to see the software in action head over to our <a href="https://2016.igem.org/Team:Edinburgh_UG/Software" target="_self">software</a> page for a walkthrough.</centre>
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         <p></p>
 
         <p></p>
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         <h3 style="font-size:400%;">By 2040, we will run out of the materials needed to store digital data.</h3>
+
         <centre style="font-size:160%;">All the files below were written in Python 2.7 and also require the SciPy stack. For Windows and Mac users we recommend to install <a href="https://www.continuum.io/downloads" target="_self">Anaconda</a>- "a leading data science platform powered by Python" in order to run the programs. Linux users will simply need to install the <a href="https://www.scipy.org/install.html" target="_self">SciPy Stack</a></centre>
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        <p style="font-size:300%;">If this happens, there will be no capacity for Twitter, Facebook or iGEM to function online. Last year, data centres worldwide used more electricity than the entire United Kingdom. By 2020, it will cost more than $13.7 billion to power data centres per year.</p>
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          <p></p>
 +
          <centre style="font-size:160%">Here you can download a zip containing all the files essential to the main BabblED software, simply unpack the zip and run gui.py inside to get started:</centre>
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          <p></p>
 
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          <centre style="font-size:160%">Distributable</centre>
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          <a href="https://static.igem.org/mediawiki/2016/c/c3/Edigemug16distfin.zip"><centre style="font-size:160%">EdiGEM16UG Distributable.zip</centre></a>
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          <centre style="font-size:160%">Here you can download zips containing the files for each section of code that we have written:</centre>
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          <p></p>
 
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          <centre style="font-size:160%">Lexicon Encoding and Decoding</centre>
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      <div class="col-sm-4">
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          <a href="https://static.igem.org/mediawiki/2016/d/d1/EdiGEM16UG_Lexicon_Encoding_and_Decoding_Code.zip"><centre style="font-size:160%">EdiGEM16UG Lexicon Encoding and Decoding Code.zip</centre></a>
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              <h1>We have a solution: DNA Information Storage</h1>
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           <centre style="font-size:160%">Error Correction</centre>
 
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          <a href="https://static.igem.org/mediawiki/2016/5/52/EdiGEM16UG_Error_Correction_Code.zip"><centre style="font-size:160%">EdiGEM16UG Lexicon Encoding and Decoding Code.zip</centre></a>
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           <centre style="font-size:160%">General Bioinformatics</centre>
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                      <h3 style="font-size:200%;" class="text-center">Density</h3>
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                      <p class="text-center">DNA has 1000 times the </p>
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                      <p class="text-center">density of flash storage</p>
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                      <h3 style="font-size:200%;" class="text-center">Affordability</h3>
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                      <p class="text-center">All our encoding programmes </p>
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                      <p class="text-center">are open source and initial </p>
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                      <p class="text-center">synthesis of the lexicon is done </p>
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                      <p class="text-center">for you providing significant </p>
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                      <p class="text-center">cost reductions on existing </p>
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                      <h3 style="font-size:200%;" class="text-center">Longevity</h3>
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                      <p class="text-center">DNA can last for </p>
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                      <p class="text-center">thousands of years </p>
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                      <p class="text-center">without consuming </p>
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                      <p class="text-center">resources; modern  </p>
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                      <p class="text-center">hard drives can only </p>
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                      <p class="text-center">last 50</p>
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                      <h3 style="font-size:200%;" class="text-center">Modularity</h3>
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                      <p class="text-center">Assembly of our BabbleBricks </p>
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                      <p class="text-center">is unrestricted and completely </p>
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                      <p class="text-center">customisable </p>
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       </div>
 
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          <a href="https://static.igem.org/mediawiki/2016/b/b0/EdiGEM16UG_General_Bioinformatics_Code.zip"><centre style="font-size:160%">EdiGEM16UG General Bioinformatics Code.zip</centre></a>
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          <centre style="font-size:160%">Encryption</centre>
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          <a href="https://static.igem.org/mediawiki/2016/0/09/EdiGEM16UG_Encryption_Code.zip"><centre style="font-size:160%">EdiGEM16UG Encryption Code.zip</centre></a>
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           <centre style="font-size:160%">Modelling</centre>
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          <h3 style="font-size:400%;" class="text-center">Abstract</h3>
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          <a href="https://static.igem.org/mediawiki/2016/a/a2/EdiGEM16UG_Modelling_Code.zip"><centre style="font-size:160%">EdiGEM16UG Modelling Code.zip</centre></a>
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In 2014, over 10 sextillion bits of data were digitally stored worldwide. To put this in context, there are only 1 sextillion grains of sand on this entire Earth. According to IBM, we generate over 2.5 billion gigabytes daily through tweets, emails and Facebook posts! The University of Edinburgh’s undergraduate team has designed a DNA storage system that is a sustainable, dense and long-lasting alternative to magnetic tape data storage. The storage system relies on modular DNA fragments that can flexibly and cost effectively store any type of data. Modularity makes BabblED the cheapest and most accessible DNA storage system available. The system is also boasts new and novel techniques to incorporate error-correcting and encryption in DNA storage. In fact, this ‘DNA Typewriter’ has already been implemented by the National Library of Scotland to archive one of their most precious manuscripts: the last letter of Mary Queen of Scots.
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          <centre style="font-size:160%">User Interface</centre>
 +
      </div>
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      <div class="col-sm-3">
 +
          <a href="https://static.igem.org/mediawiki/2016/2/26/EdiGEM16UG_User_Interface_Code.zip"><centre style="font-size:160%">EdiGEM16UG User Interface Code.zip</centre></a>
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Latest revision as of 00:03, 20 October 2016

Here you can find zip files containing all the code for the BabblED software along with handy documentation about how to install the programs. Alternatively all the code is also available completely open source on our Githubor if you would just like to see the software in action head over to our software page for a walkthrough.

All the files below were written in Python 2.7 and also require the SciPy stack. For Windows and Mac users we recommend to install Anaconda- "a leading data science platform powered by Python" in order to run the programs. Linux users will simply need to install the SciPy Stack

Here you can download a zip containing all the files essential to the main BabblED software, simply unpack the zip and run gui.py inside to get started:

Distributable
EdiGEM16UG Distributable.zip

Here you can download zips containing the files for each section of code that we have written:

Lexicon Encoding and Decoding
EdiGEM16UG Lexicon Encoding and Decoding Code.zip
Error Correction
EdiGEM16UG Lexicon Encoding and Decoding Code.zip
General Bioinformatics
EdiGEM16UG General Bioinformatics Code.zip
Encryption
EdiGEM16UG Encryption Code.zip
Modelling
EdiGEM16UG Modelling Code.zip
User Interface
EdiGEM16UG User Interface Code.zip

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