[Bioperl-l] Sim4 help

Brian Osborne brian_osborne at cognia.com
Fri Jul 9 07:25:42 EDT 2004


There's a section on SIM4 parsing in the bptutorial, but you could also use
SearchIO, it's described in a HOWTO,
http://bioperl.org/HOWTOs/html/SearchIO.html, but there's no example code
for SIM4. There is also a script, scripts/utilities/search2BSML which refers
about SIM4.

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 Miroslava
Sent: Thursday, July 08, 2004 1:15 PM
To: bioperl-l at bioperl.org
Subject: [Bioperl-l] Sim4 help

Dear All,
I am a complete novice to BioPerl and (thus) experiencing quite a few
I am trying to write a software that would use Bio::Tools::Sim4::Results
to get exons for an input sequence. I tried to follow instructions on
bioperl.org site without much luck.
Would some kind soul out there mind sharing with me an example of a
software that successfully utilizes Sim4.
Any help would be truly appreciated.
Miroslava Cuperlovic-Culf, Ph.D.
Beausejour Medical Research Institute (IRMB)
37 Providence Street, Moncton, NB E1C 8X3
e-mail: miroslavac at health.nb
tel: 506-862-7572 (off.); 506-862-7570 (lab)
fax: 506-862-4222

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