Sarah Richardson > Bio-BioStudio-1.05 > Bio::BioStudio::Diff::Difference

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Source   Latest Release: Bio-BioStudio-2.00

NAME ^

Bio::BioStudio::Diff::Difference - holds the difference between two Bio::DB::SeqFeature objects

VERSION ^

Version 1.05

DESCRIPTION ^

AUTHOR ^

Sarah Richardson <notadoctor@jhu.edu>.

FUNCTIONS ^

new

 Title   : new                                     
 Function:
 Returns : a new Bio::BioStudio::Diff:Difference object
 Args    : -oldfeat     => Bio::DB::SeqFeature object
           -newfeat     => Bio::DB::SeqFeature object
           -oldsubfeat  => Bio::DB::SeqFeature object
           -newsubfeat  => Bio::DB::SeqFeature object
           -subdiff     => Bio::BioStudio::Diff:Difference object
           -oldatt
           -newatt
           -aligns      => Bio::Search::Result::BlastResult factory object
           -code        => integer from 1 to 12
           -basegain
           -baseloss
           -basechange
           -comment
           -display

newfeat

oldfeat

newsubfeat

oldsubfeat

subdiff

aligns

code

basegain

baseloss

basechange

oldatt

newatt

comment

display

feature

id

subid

textline

htmlline

COPYRIGHT AND LICENSE ^

Copyright (c) 2011, BioStudio developers All rights reserved.

Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met:

* Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer.

* Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.

* Neither the name of the Johns Hopkins nor the names of the developers may be used to endorse or promote products derived from this software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE DEVELOPERS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

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