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Team:Cambridge/Software Tools
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[http://voigtlab.ucsf.edu/ruby/assembly Primer design for Gibson] | [http://voigtlab.ucsf.edu/ruby/assembly Primer design for Gibson] | ||
===Calculating nucleic acid interactions=== | ===Calculating nucleic acid interactions=== | ||
| + | [http://mfold.bioinfo.rpi.edu/ Cis-folding of DNA and Rcd (for primer design + Rcd)] | ||
| + | |||
[http://dinamelt.bioinfo.rpi.edu/hybrid2.php Trans interactions (e.g. Rcd)] | [http://dinamelt.bioinfo.rpi.edu/hybrid2.php Trans interactions (e.g. Rcd)] | ||
| + | |||
| + | ===Codon optimisation=== | ||
| + | [http://genedesign.thruhere.net/cgi-bin/gd/gdCodJug.cgi Codon juggling tool, good compromise?] | ||
| + | |||
| + | [http://www.genscript.com/cgi-bin/tools/rare_codon_analysis Rare codon analysis] | ||
| + | |||
| + | [http://genomes.urv.cat/OPTIMIZER/ OPTIMIZER] | ||
| + | |||
==Downloadable tools== | ==Downloadable tools== | ||
[http://www.clcbio.com/ CLC Main Workbench] | [http://www.clcbio.com/ CLC Main Workbench] | ||
[http://dinamelt.bioinfo.rpi.edu/download.php UNA Fold for linux] offline version of DINAMelt, complex | [http://dinamelt.bioinfo.rpi.edu/download.php UNA Fold for linux] offline version of DINAMelt, complex | ||
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| + | </html> | ||
| + | {{:Team:Cambridge/Templates/footerMinimal}} | ||
Latest revision as of 11:41, 18 August 2010
Logistics: Software Tools
Online Tools
Primer design
[http://voigtlab.ucsf.edu/ruby/assembly Primer design for Gibson]
Calculating nucleic acid interactions
[http://mfold.bioinfo.rpi.edu/ Cis-folding of DNA and Rcd (for primer design + Rcd)]
[http://dinamelt.bioinfo.rpi.edu/hybrid2.php Trans interactions (e.g. Rcd)]
Codon optimisation
[http://genedesign.thruhere.net/cgi-bin/gd/gdCodJug.cgi Codon juggling tool, good compromise?]
[http://www.genscript.com/cgi-bin/tools/rare_codon_analysis Rare codon analysis]
[http://genomes.urv.cat/OPTIMIZER/ OPTIMIZER]
Downloadable tools
[http://www.clcbio.com/ CLC Main Workbench]
[http://dinamelt.bioinfo.rpi.edu/download.php UNA Fold for linux] offline version of DINAMelt, complex
