Christopher Fields > BioPerl > Bio::Search::Result::WABAResult

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Module Version: 1.006924   Source  

NAME ^

Bio::Search::Result::WABAResult - Result object for WABA alignment output

SYNOPSIS ^

# use this object exactly as you would a GenericResult # the only extra method is query_database which is the # name of the file where the query sequence came from

DESCRIPTION ^

This object is for WABA result output, there is little difference between this object and a GenericResult save the addition of one method query_database. Expect many of the fields for GenericResult to be empty however as WABA was not intended to provide a lot of extra information other than the alignment.

FEEDBACK ^

Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated.

  bioperl-l@bioperl.org                  - General discussion
  http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

Support

Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the web:

  https://github.com/bioperl/bioperl-live/issues

AUTHOR - Jason Stajich ^

Email jason@bioperl.org

APPENDIX ^

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

new

 Title   : new
 Usage   : my $obj = Bio::Search::Result::WABAResult->new();
 Function: Builds a new Bio::Search::Result::WABAResult object 
 Returns : Bio::Search::Result::WABAResult
 Args    : -query_database => "name of the database where the query came from"

query_database

 Title   : query_database
 Usage   : $obj->query_database($newval)
 Function: Data field for the database filename where the 
           query sequence came from
 Returns : value of query_database
 Args    : newvalue (optional)

All other methods are inherited from Bio::Search::Result::GenericResult

See the Bio::Search::Result::GenericResult for complete documentation of the rest of the methods that are available for this module.

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