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{{William_and_Mary}}
 
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<h2>Software</h2>
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<p>In order to be considered for the <a href="https://2015.igem.org/Judging/Awards#SpecialPrizes">Best Software Tool award</a>, you must fill out this page.</p>
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<p>Regardless of the topic, iGEM projects often create or adapt computational tools to move the project forward. Because they are born out of a direct practical need, these software tools (or new computational methods) can be surprisingly useful for other teams. Without necessarily being big or complex, they can make the crucial difference to a project's success. This award tries to find and honour such "nuggets" of computational work.</p>
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                    <p class="h2WM">Software</p>
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                    <p class="large">W&M iGEM Presents: Sequence Analyzing Software</p>
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<p><a href = "https://static.igem.org/mediawiki/2015/4/4c/WMSeqAn.txt"> Download our Python script here. </a> <a href = "https://static.igem.org/mediawiki/2015/0/02/WM_SeqAn_Inputs.xls">Download our input spreadsheet here.</a> Then see below for the steps to use the software.</p>
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<p>(1) Place all files with observed sequences in a single folder.</p>
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<p>(2) Make input spreadsheet of expected sequences following the example template.</p>
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<p>(3) Place folder of observed sequences and input spreadsheet in the same directory as sequence_analyzer.py.</p>
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<p>(4) Run sequence_analyzer.py.  To do this, navigate in command line to directory holding sequence_analyzer.py, input spreadsheet and folder of observed sequences.  There, Input “python sequence_analyzer.py”</p>
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<p>(5) On command, enter the name of the folder with observed sequences and the name of the input spreadsheet and press Enter. (These are separate commands with separate inputs. For each input, place the name in quotes, .i.e. “150722 Sequences”.)</p>
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<p>(6) Program will output each analysis into a separate .docx file in a Results folder which it will create. See example output.</p>
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<p>(7) Program will output summary into a spreadsheet in Results folder.</p>
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<p>(8) Check command line output. These will indicate if there is any discrepancy between the output and the observed sequence.
 
</p>
 
</p>
  
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<p>
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<br>
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Here are a few examples from previous teams:
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<p class = "h2WM">Example Output</p>
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</p>
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<ul>
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<object data="https://static.igem.org/mediawiki/2015/4/4d/WMexampleOut.pdf" type="application/pdf" width="100%" height="700px">
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<li><a href="https://2013.igem.org/Team:TU-Munich/Results/Software">TU Munich 2013</a></li>
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  <p>It appears you don't have a PDF plugin for this browser.
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<li><a href="https://2014.igem.org/Team:Heidelberg/Software">Heidelberg 2014</a></li>
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  No biggie... you can <a href="https://static.igem.org/mediawiki/2015/4/4d/WMexampleOut.pdf">click here to
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<li><a href="https://2014.igem.org/Team:Aachen/Project/Measurement_Device#Software">Aachen 2014</a></li>
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  download the PDF file.</a></p> 
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Latest revision as of 04:39, 21 November 2015

NOISE - W&M iGEM

Software

W&M iGEM Presents: Sequence Analyzing Software

Download our Python script here. Download our input spreadsheet here. Then see below for the steps to use the software.

(1) Place all files with observed sequences in a single folder.

(2) Make input spreadsheet of expected sequences following the example template.

(3) Place folder of observed sequences and input spreadsheet in the same directory as sequence_analyzer.py.

(4) Run sequence_analyzer.py. To do this, navigate in command line to directory holding sequence_analyzer.py, input spreadsheet and folder of observed sequences. There, Input “python sequence_analyzer.py”

(5) On command, enter the name of the folder with observed sequences and the name of the input spreadsheet and press Enter. (These are separate commands with separate inputs. For each input, place the name in quotes, .i.e. “150722 Sequences”.)

(6) Program will output each analysis into a separate .docx file in a Results folder which it will create. See example output.

(7) Program will output summary into a spreadsheet in Results folder.

(8) Check command line output. These will indicate if there is any discrepancy between the output and the observed sequence.


Example Output

It appears you don't have a PDF plugin for this browser. No biggie... you can click here to download the PDF file.