Team:Cambridge/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