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

 
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    .image-bg-fluid-height,
 
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    .image-bg-fluid-height {
 
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    background: url('https://static.igem.org/mediawiki/2016/1/15/Edinburgh2_front_page.jpeg');
 
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      padding: 450px 0;
 
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    .image-bg-fixed-height {
 
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    background: url('http://lorempixel.com/g/1920/500/') no-repeat center center scroll;
 
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        height: 450px;
 
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    .img-center {
 
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      position: absolute;
 
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     .section-paragraph {
 
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    .header-image {
 
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        width: 100%;
 
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        -webkit-background-size: cover;
 
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        -moz-background-size: cover;
 
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    p1 {
 
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    text-align: center;
 
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    font-size: 200%;
 
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    }
 
  
 
</style>
 
</style>
  
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<script>
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<div id="custom-bootstrap-menu" class="navbar navbar-default navbar-fixed-top" role="navigation">
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  $(function(){
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    <div class= "container-fluid">
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$('.your-class').slick({arrows:false});
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      <!-- Navigation -->
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    $('#next').click(function(){
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      <nav class="navbar navbar-inverse navbar-fixed-top" role="navigation">
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    $('.your-class').slick('slickNext');
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          <div class="container">
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    });
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              <!-- Brand and toggle get grouped for better mobile display -->
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    $('#prev').click(function(){
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              <div class="navbar-header">
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    $('.your-class').slick('slickPrev');
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                  <button type="button" class="navbar-toggle" data-toggle="collapse" data-target="#bs-example-navbar-collapse-1">
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    });
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                      <span class="sr-only">Toggle navigation</span>
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});
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                      <span class="icon-bar"></span>
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</script>
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                      <span class="icon-bar"></span>
 +
                      <span class="icon-bar"></span>
 +
                  </button>
 +
                  <a class="navbar-brand" href="https://2016.igem.org/Team:Edinburgh_UG">
 +
                      <img src="https://static.igem.org/mediawiki/2016/9/92/Edinburgh_logo2_MINI.png" alt="">
 +
                  </a>
 +
              </div>
  
−
    <div id="custom-bootstrap-menu" class="navbar navbar-default navbar-fixed-top" role="navigation">
+
               <!-- Collect the nav links, forms, and other content for toggling -->
−
        <div class= "container-fluid">
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              <div class="collapse navbar-collapse" id="bs-example-navbar-collapse-1">
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          <!-- Navigation -->
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                  <ul class="nav navbar-nav">
−
          <nav class="navbar navbar-inverse navbar-fixed-top" role="navigation">
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                      <li>
−
               <div class="container">
+
                          <a href="https://2016.igem.org/Team:Edinburgh_UG">Home</a>
−
                  <!-- Brand and toggle get grouped for better mobile display -->
+
                      </li>
−
                  <div class="navbar-header">
+
                      <li class="dropdown">
−
                      <button type="button" class="navbar-toggle" data-toggle="collapse" data-target="#bs-example-navbar-collapse-1">
+
                        <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>
+
                        <ul class="dropdown-menu" role="menu">
−
                          <span class="icon-bar"></span>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Team">Team</a></li>
−
                          <span class="icon-bar"></span>
+
                          <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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                        </ul>
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                      </button>
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                      </li>
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                      <a class="navbar-brand" href="#">
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                      <li class="dropdown">
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                          <img src="https://static.igem.org/mediawiki/2016/9/92/Edinburgh_logo2_MINI.png" alt="">
+
                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Human Practices<span class="caret"></span></a>
−
                      </a>
+
                        <ul class="dropdown-menu" role="menu">
−
                  </div>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Overview">Overview</a> </li>
−
                  <!-- Collect the nav links, forms, and other content for toggling -->
+
                          <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">
+
                          <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>
−
                          <li>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Integrated_Practices">Integrated Practices</a> </li>
−
                              <a href="https://2016.igem.org/Team:Edinburgh_UG">Home</a>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Engagement">Engagement</a> </li>
−
                          </li>
+
                          <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Ethics">Ethics</a> </li>
−
                          <li class="dropdown">
+
                           <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Mary_Queen_of _Scots">Mary Queen of Scots</a> </li>
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Team<span class="caret"></span></a>
+
                        </ul>
−
                            <ul class="dropdown-menu" role="menu">
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                      </li>
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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">
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Attribution">Attribution</a></li>
+
                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Project<span class="caret"></span></a>
−
                            </ul>
+
                        <ul class="dropdown-menu" role="menu">
−
                          </li>
+
                          <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>
+
                          <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>
−
                              <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>
+
                          <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>
+
                      </li>
−
                           </li>
+
                      <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>
−
                            <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>
+
                        <ul class="dropdown-menu" role="menu">
−
                          <li class="dropdown">
+
                          <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">
+
                          <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>
+
                      <li class="dropdown">
−
                            </ul>
+
                        <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Safety<span class="caret"></span></a>
−
                          </li>
+
                        <ul class="dropdown-menu" role="menu">
−
                          <li>
+
                          <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>
−
                          </li>
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                      </li>
−
                          <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">Interlab<span class="caret"></span></a>
−
                            <ul class="dropdown-menu" role="menu">
+
                        <ul class="dropdown-menu" role="menu">
−
                              <li><a href="https://2016.igem.org/Team:Edinburgh_UG/Entrepreneurship">Entrepreneurship</a></li>
+
                          <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>
−
                          <li class="dropdown">
+
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">Safety<span class="caret"></span></a>
+
−
                            <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>
+
−
                          <li class="dropdown">
+
−
                            <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>
+
−
                            </ul>
+
−
                          </li>
+
−
                      </ul>
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                  </div>
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               </div>
 
               </div>
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               <!-- /.container -->
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               <!-- /.navbar-collapse -->
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           </nav>
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           </div>
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        </div>
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          <!-- /.container -->
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      </nav>
 
     </div>
 
     </div>
 +
</div>
 +
    <!-- End of menu  -->
  
  
−
    <!-- End of menu  -->
+
  <div class="row">
 +
      <div class="col-sm-12">
 +
          <img src="https://static.igem.org/mediawiki/2016/7/7b/EdiGEM16ugfiles1.png" class="img-responsive center-block">
 +
      </div>
 +
  </div>
  
 +
  <div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-6">
 +
        <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>
 +
      </div>
 +
      <div class="col-sm-3"></div>
 +
    </div>
 +
  </div>
 +
 +
<div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-6">
 +
        <p></p>
 +
        <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>
 +
      </div>
 +
      <p></p>
 +
      <div class="col-sm-3"></div>
 +
    </div>
 +
  </div>
  
 
   <div class="row">
 
   <div class="row">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-6">
 +
          <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>
 +
          <p></p>
 +
      </div>
 +
      <div class="col-sm-3"></div>
 +
  </div>
 +
 +
  <div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 
       <div class="col-sm-3">
 
       <div class="col-sm-3">
−
          <img src="https://static.igem.org/mediawiki/2016/b/b3/EdiGEM16files.png"></img>
+
          <centre style="font-size:160%">Distributable</centre>
 
       </div>
 
       </div>
−
       <div class="col-sm-9">
+
       <div class="col-sm-4">
 +
          <a href="https://static.igem.org/mediawiki/2016/c/c3/Edigemug16distfin.zip"><centre style="font-size:160%">EdiGEM16UG Distributable.zip</centre></a>
 
       </div>
 
       </div>
 +
      <div class="col-sm-2"></div>
 +
    </div>
 +
  </div>
 +
 +
  <div class="row">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-6">
 +
          <p></p>
 +
          <centre style="font-size:160%">Here you can download zips containing the files for each section of code that we have written:</centre>
 +
          <p></p>
 +
      </div>
 +
      <div class="col-sm-3"></div>
 +
  </div>
 +
 +
  <div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-3">
 +
          <centre style="font-size:160%">Lexicon Encoding and Decoding</centre>
 +
      </div>
 +
      <div class="col-sm-4">
 +
          <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>
 +
      </div>
 +
      <div class="col-sm-2"></div>
 +
    </div>
 +
  </div>
 +
 +
 +
  <div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-3">
 +
          <centre style="font-size:160%">Error Correction</centre>
 +
      </div>
 +
      <div class="col-sm-4">
 +
          <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>
 +
      </div>
 +
      <div class="col-sm-2"></div>
 +
    </div>
 +
  </div>
 +
 +
<div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-3">
 +
          <centre style="font-size:160%">General Bioinformatics</centre>
 +
      </div>
 +
      <div class="col-sm-4">
 +
          <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>
 +
      </div>
 +
      <div class="col-sm-2"></div>
 +
    </div>
 +
  </div>
 +
 +
<div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-3">
 +
          <centre style="font-size:160%">Encryption</centre>
 +
      </div>
 +
      <div class="col-sm-3">
 +
          <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>
 +
      </div>
 +
      <div class="col-sm-3"></div>
 +
    </div>
 +
  </div>
 +
 +
<div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-3">
 +
          <centre style="font-size:160%">Modelling</centre>
 +
      </div>
 +
      <div class="col-sm-3">
 +
          <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>
 +
      </div>
 +
      <div class="col-sm-3"></div>
 +
    </div>
 +
  </div>
 +
 +
<div class="container-fluid">
 +
    <div class="row full-size">
 +
      <div class="col-sm-3"></div>
 +
      <div class="col-sm-3">
 +
          <centre style="font-size:160%">User Interface</centre>
 +
      </div>
 +
      <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>
 +
      </div>
 +
      <div class="col-sm-3"></div>
 +
    </div>
 
   </div>
 
   </div>
  

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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