[Bioperl-l] Driver program for PestFind.pm

Chris Fields cjfields at uiuc.edu
Sun Dec 10 13:55:16 EST 2006


On Dec 10, 2006, at 4:00 AM, synapse wrote:

>    Dear All,
>
>    I apologize in advance for my almost total lack of knowledge of  
> perl as a
> programming language.
>
>    I need to use PestFind program, part of the biop_run package of  
> bioperl. My
> understanding is that I will need a simple wrapper program that  
> will read
> arguments from the command line, and pass them to that module.

PestFind is part of the EMBOSS suite of programs:

http://emboss.sourceforge.net/

The PestFind module in bioperl-run is actually used via Pise.

>    - Is there such program available that I can just use?

See above

>    - Does anyone know if pestfind can work on multiple sequence  
> files (in fasta
> format), or does it only process single sequence files?
>
>    Thanks a lot for the feedback.

No idea there, but the EMBOSS docs should tell you.

chris


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