[Bioperl-l] primer parameters using primer3

[Jason Stajich]

I put up some info on the wiki (and I encourage other people to do  
the same!)
http://bioperl.org/wiki/Module:Bio::Tools::Run::Primer3

Set the command line parameters by just calling a function of the  
name of the parameter.  To get a list of the available options, this  
perl code will report it to you:

# what are the arguments, and what do they mean?
   my $args = $primer3->arguments;

   print "ARGUMENT\tMEANING\n";
   foreach my $key (keys %{$args}) {print "$key\t", $$args{$key}, "\n"}

The info for PRODUCT_SIZE_RANGE is:
   (size range list, default 100-300) space separated list of product  
sizes eg <a>-<b> <x>-<y>

I believe you can set the PCR product size with
   $primer3->primer_product_size_range("490-510");

-jason
On May 7, 2006, at 3:34 AM, chen li wrote:

> Hi all,
>
> I use Bio::Tools::Run::Primer3 to design PCR primers.
> I want to change some default values, for example, to
> increase the PCR product size to 490-510 bp instead of
> using the default value of 100-300 bp. What should I
> do ?
>
>
> Thanks,
>
> Li
>
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--
Jason Stajich
Duke University
http://www.duke.edu/~jes12