[Bioperl-l] about pI prediction

[Brian Osborne]

Frank,

I've used both Tools/pICalculator and Tools/SeqStats.

Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Marc Logghe
Sent: Tuesday, May 17, 2005 4:09 PM
To: Frank; bioperl-l at portal.open-bio.org
Subject: RE: [Bioperl-l] about pI prediction


Hi Frank,
> Dose anyone use the  bioperl module to predict pI and 
> molecular weight 
> of a protein?   Thanks
Don't know of a pure BioPerl module to predict pI. You can use
Bio::Tools::SeqStats to get the molecular weight, though.
If you have EMBOSS installed, you can use the Bioperl wrapper to the
EMBOSS application 'pepstats' for both the pI and mol weight. Have a
look at the docs for Bio::Factory::EMBOSS.
However, you have to parse out the corresponding values. The EMBOSS
docs, including an example output you can find at
http://emboss.sourceforge.net/apps/pepstats.html
HTH,
Marc

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