[Bioperl-l] ORF FInder

[Jason Stajich]

Not in bioperl directly but you can use emboss's getorf program.

On Sun, 10 Feb 2002, Lynn Stevens wrote:

> Is there a module in BioPerl which allows you to take a sequence and get
> back a list of all the ORFs (or even just the largest ORF) in all six frames
> (or even just one frame) indexed by sequence position.
>
> In other words you would submit a seq object and you would get back a set of
> numbers which tell you where the ORFs are located in the sequence.
>
> I have looked through all the documentation and still can not find this
> feature even though it seem like an extremely common task.
>
> Thanks for any help,
>
> Lynn
>
>
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-- 
Jason Stajich
Duke University
jason@cgt.mc.duke.edu