[Bioperl-guts-l] [BioPerl - Bug #1857] Bio::SearchDist (Bio::Ext::Align) reports incorrect E-values

redmine at redmine.open-bio.org redmine at redmine.open-bio.org
Wed Mar 30 14:10:40 EDT 2011


Issue #1857 has been updated by Chris Fields.

Assignee changed from Ewan Birney to Bioperl Guts

This should probably be superseded by Math::GSL-related code or using bindings to Sean Eddy's easel library (which I don't think is available on it's own yet).
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Bug #1857: Bio::SearchDist (Bio::Ext::Align) reports incorrect E-values
https://redmine.open-bio.org/issues/1857

Author: Gabor Toth
Status: New
Priority: Normal
Assignee: Bioperl Guts
Category: bioperl-ext
Target version: 1.4 branch
URL: http://bioweb.abc.hu/tmp/evd/index.html


Bio::SearchDist does not provide meaningful E-values when trying to fit an   
extreme value distribution (EVD) to a set of integer scores.   
The fit_evd() method seems to complete successfully (i.e. it returns 1). 
However, the subsequently calculated E-values are not correct. 
 
For a test script and input file see http://bioweb.abc.hu/tmp/evd/index.html


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