Bioperl: Bioperl SEQ functions

[Aaron J Mackey]

Cliff - come on up to Bill's lab and we can hack it out together.  But no,
there's not (yet) any MW, pI or hydrophobicity methods in Seq.pm, but we
should make some tools to do that with.

use Bio::Tools::MW;
use Bio::Tools::pI;
use Bio::Tools::Hydrophobicity;

$pI = Bio::Tools::pI->calc_pI($seq);
$mw = Bio::Tools::MW->calc_mw($seq);
$hydro = Bio::Tools::Hydrophobicity->calc_average_hydrophobicity($seq);

print Bio::Tools::Hydrophobicity->kyte_doolittle($seq); # yee haw!

-Aaron


On Wed, 30 Jun 1999, Clifton Franklund wrote:

> Dear Sirs:
> 
> I've been using BioPerl at the University of Virginia. 
> 
> Question: has anyone yet written functions to allow calculation of pI, MW, and
> mean hydrophobicity of protein sequences?
> 
>     If not, I'm going to hammer them out myself.  Would you be interested in
> seeing the code?  
> 
> Thank you in advance for you time.
> 
> Sincerely,
> 
> Clifton Franklund, Ph.D.
> cvf5g@virginia.edu
> Box 441, School of Medicine
> Department of Microbiology
> University of Virginia
> Charlottesville, VA USA  22908
> =========== Bioperl Project Mailing List Message Footer =======
> Project URL: http://bio.perl.org/
> For info about how to (un)subscribe, where messages are archived, etc:
> http://www.techfak.uni-bielefeld.de/bcd/Perl/Bio/vsns-bcd-perl.html
> ====================================================================
> 

-- 
 o ~   ~   ~   ~   ~   ~  o
/ Aaron J Mackey           \
\  Dr. Pearson Laboratory  / 
 \ University of Virginia  \     
 /  (804) 924-2821          \
 \  amackey@virginia.edu    /
  o ~   ~   ~   ~   ~   ~  o


=========== Bioperl Project Mailing List Message Footer =======
Project URL: http://bio.perl.org/
For info about how to (un)subscribe, where messages are archived, etc:
http://www.techfak.uni-bielefeld.de/bcd/Perl/Bio/vsns-bcd-perl.html
====================================================================