"
Team:NYU/Programming
From 2010.igem.org
(Difference between revisions)
| Line 296: | Line 296: | ||
* This script allows the user to input a DNA sequence and outputs the primers necessary for biobricking that sequence via PCR. The script calculates Tm but does not (yet) consider primer dimers. | * This script allows the user to input a DNA sequence and outputs the primers necessary for biobricking that sequence via PCR. The script calculates Tm but does not (yet) consider primer dimers. | ||
| - | *Finally got the CGI working - go [http:// | + | *Finally got the CGI working - click below or go [http://openwetware.org/images/a/a7/Biobrickprimers.txt here for the source code] |
| - | + | <html> | |
| + | <a href="http://russelldurrett.com/biobrickprimers.html"><img src="https://static.igem.org/mediawiki/2010/7/77/Biobricking_Primers_Logo.gif"/></a> | ||
| + | </html> | ||
=====Overlap Oligo Maker===== | =====Overlap Oligo Maker===== | ||
| Line 304: | Line 306: | ||
* Some very fast and efficient DNA assembly methods require parts to overlap on the ends of their sequences. This script will take two DNA sequences and output the oligos (and their Tms) one would need to PCR constructs with overlapping ends. | * Some very fast and efficient DNA assembly methods require parts to overlap on the ends of their sequences. This script will take two DNA sequences and output the oligos (and their Tms) one would need to PCR constructs with overlapping ends. | ||
| - | *I'm a CGI machine! [http:// | + | *I'm a CGI machine! [http://openwetware.org/images/6/67/Overlapoligos.txt Here is the source code.] or click below for an interactive version. |
| - | + | <html> | |
| + | <a href="http://www.russelldurrett.com/overlapoligos.html"><img src="https://static.igem.org/mediawiki/2010/7/74/Overlap_Oligos_Logo.gif" width="300" height="200" /></a></html> | ||
Revision as of 06:59, 25 October 2010
About this Page
- Competent programming skills are quickly becoming a necessity for working in biology. Because most of our team members had never had exposure to a programming environment, we decided to use the obstacles presented in our iGEM experiments as cause for learning the Perl programming language and produced some simple scripts that could do routine iGEM labors for us. Here are some examples:
Biobricking Primers
- This script allows the user to input a DNA sequence and outputs the primers necessary for biobricking that sequence via PCR. The script calculates Tm but does not (yet) consider primer dimers.
- Finally got the CGI working - click below or go here for the source code
Overlap Oligo Maker
- Some very fast and efficient DNA assembly methods require parts to overlap on the ends of their sequences. This script will take two DNA sequences and output the oligos (and their Tms) one would need to PCR constructs with overlapping ends.
- I'm a CGI machine! Here is the source code. or click below for an interactive version.
