[Bioperl-l] Primer3

Chris Fields cjfields at illinois.edu
Fri Nov 5 13:27:13 EDT 2010


This all depends on what version of Primer3 you are using; the Primer3 tools in bioperl-live and bioperl-run do not work with primer3 v2 due to significant changes in the primer3 API.  However, I wrote up a full refactor of these tools, along with tests, here:

https://github.com/cjfields/Bio-Tools-Primer3Redux

This includes both the wrapper and the parser (see the test files for examples on how to run them).  They have been renamed because of a change in the module API.  Let me know if they work for you.

chris

On Nov 5, 2010, at 10:52 AM, alpita at uvigo.es wrote:

> Hi
> 
> I am a PhD-student working with EST sequences. I have got an input file for Primer3 and the program does not run. I try directly in the windows console and with Bioperl. I suppose the problem is with the syntax, because I have never used these tools, so I would appreciate some help.
> 
> How can I invoked my input file in primer 3? If it is easy to run it with BioPerl, tell me
> 
> Thank you very much
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