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| − | <html>
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| − | <head>
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| − | <meta http-equiv="refresh" content="1800;URL='pigeondone.html'">
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| − | </head>
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| − | <body bgcolor="#ffffff">
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| − | <font face = "Arial">
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| − | <center>
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| − | <hr width=900>
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| − | <img src=sbolpicgen.png width=475>
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| − | <h1>
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| − | <a href = http://pigeoncad.org>Pigeon</a>
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| − | </h1>
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| − | <h3>
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| − | Design Visualizer for Synthetic Biology
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| − | </h3>
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| − | <hr width=900>
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| − | </center>
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| − | <center>
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| − | <table width=900 align=middle>
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| − | <tr><td>
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| − | Syntax: <br>
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| − | A list of
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| − | <em>type [name] [color] [nl]</em>
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| − | where <em>type</em> is one of <em>p, P, c, r, t, T, s, o, >, <, | or - </em>;
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| − | a line with <em># Arcs</em>; followed by a list of
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| − | <em> name ind | rep name</em>
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| − | There are 14 colors labeled 1 to 14. These appear as the third item in each line.
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| − | Even numbers are darker versions of the odd numbered colors in the following order of hues: blue, green, red, orange,
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| − | purple, yellow, and black.
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| − | <h3>
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| − | Color codes:
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| − | </h3>
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| − | <center>
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| − | <img src=colorcode.png width=600>
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| − | </center>
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| − | <h3>
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| − | Glyph codes:
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| − | </h3>
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| − | <center>
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| − | <img src=pigeonlist.png width=1300>
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| − | </center>
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| − | <br>
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| − | <center>
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| − | <p>
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| − | <b>TIP: You can access Pigeon via Perl using <a href = pigget.txt target = blank>pigget.pl</a>.</b>
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| − | </p>
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| − | <p>
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| − | <b>TIP: <font color="#aa0000">You can provide feedback on Pigeon through the Pigeon Forum <a href=feedback.html target=blank>here</a>.</font></b>
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| − | </p>
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| − | <p>
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| − | <b>TIP: You can find Pigeon examples <a href=pigeonHelp.html target=blank>here</a>.</b>
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| − | </p>
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| − | <p>
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| − | <b>TIP: You can read about Pigeon <a href=http://pubs.acs.org/doi/abs/10.1021/sb400024s target=blank>here</a>.</b>
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| − | </p>
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| − | <p>
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| − | <b>TIP: <font color="#aa00aa">You can specify your own colors using the <sf>rgbcolors</sf> command. See example #9 <a href=pigeonHelp.html target=blank>here</a>.</font></b>
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| − | </p>
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| − |
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| − | <form action = "pigeon.php" method = "post" >
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| − | <p>
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| − | <textarea name = "desc" rows=20 cols=75/>o A 1
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| − | <t t
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| − | <c c2 2
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| − | <r r1 1
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| − | <p p1 6
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| − | s spacer 9
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| − | p p2 2
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| − | r r2 5
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| − | c c1 6
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| − | t t
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| − | o B 1
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| − | z ori 1
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| − | ? Amp 1
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| − | v KanR 1
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| − | # Arcs
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| − | c1 rep p1
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| − | c2 rep p2
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| − | y rep c1-p1
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| − | x rep c2-p2
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| − | </textarea>
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| − |
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| − | </p>
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| − | <p>
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| − | <label>Background color:</label>
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| − | <input type="text" name="bgcolor" id="bgcolor" />
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| − | </p>
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| − | <p>
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| − | <!-Top arcs only: <input type = "checkbox" checked = "Checked" name = "topOnly" value = "Yes"/>
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| − | </p>
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| − | <input type = "submit" value = "Pigeon!"/>
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| − | <p>
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| − | <font color="#aa0000"><small>▶   Please cite <em>``Bhatia, S. & Densmore, D. Pigeon: a design visualizer for synthetic biology. ACS Synth. Biol. 2, 348–350 (2013).''</em> in your ``Methods,'' if you use Pigeon in your work.</font></small>
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| − | </p>
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| − |
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| − | </form>
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| − | <br><br>
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| − | <p></p><img src =scratch/file.137.122.64.15938080-trans.png alt = "Weyekin output image"><p>(<a href=scratch/file.137.122.64.15938080.fig.svg target=blank>svg</a>)<sup><font size=-1>(Under test)</font></sup></p><font size=-2><p>You are connecting from 137.122.64.159:38721.</p></font>
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| − | <!-hr width=900>
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| − | <br>
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| − | <br>
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| − | <br>
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| − | <br>
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| − | <br>
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| − | <br>
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| − | </center>
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| − | <a href=http://www.cidarlab.org target=blank>
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| − | <img src=bulogo.png width=100 align=right>
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| − | </a>
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| − | <br>
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| − | Comments? Contact <a href=http://people.bu.edu/swapnilb/ target=blank>me.</a>
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| − | </center>
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| − | </html>
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