[Bioperl-l] Bio::Tools::Genewise

Shawn Hoon shawnh at stanford.edu
Thu Mar 18 19:41:31 EST 2004

You would need to add the -genesf option when running genewise.

Also, you can check out the wrapper for genewise in 
Bio::Tools::Run::Genewise in the bioperl-run package.



On Mar 18, 2004, at 4:25 PM, Bill Dirks wrote:

> Hi, I believe there is an error in the synopsis section of 
> Bioperl::Tools::Genewise The line that reads: my $gw = 
> Bio::Tools::Genewise(-file=>"genewise.out"); It should be, I believe: 
> my $gw = Bio::Tools::Genewise->new(-file=>"genewise.out"); I, however, 
> still can't the synopsis to work. I put the output of the genewise 
> example: genewise road.pep human.genomic > genewise.out and tried the 
> synopsis sample script. However, $gw->next_prediction does not return 
> anything. Does anyone have any ideas why? Thanks,
> Bill
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