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hsalis / Ribosome-Binding-Site-Calculator-v1.0

The Ribosome Binding Site (RBS) Calculator can predict the translation initiation rate of a protein coding sequence in bacteria and design synthetic RBS sequences to rationally control the translation initiation rate. It is used to design synthetic biological systems.
http://salis.psu.edu/software
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Use NUPACK3.0 rna1999 material. #1

Closed brianwolfe closed 11 years ago

brianwolfe commented 11 years ago

I made a couple of quick patches to use -material rna1999 rather than -material rna37 since the parsing doesn't handle the deprecation statement for the old material syntax. It would be good to make this available for people who want to use this code with the latest version of NUPACK.

hsalis commented 11 years ago

Thanks, Brian, for the patch. It's been merged with the public mainline. As you might imagine from the apparent non-activity of this repo, we've gone "private". We've also been using ViennaRNA lately, mainly due to threading & multi-processor issues.