Bio::SearchIO::SearchResultEventBuilder - Event Handler for SearchIO events.
# Do not use this object directly, this object is part of the SearchIO # event based parsing system.
This object handles Search Events generated by the SearchIO classes and build appropriate Bio::Search::* objects from them.
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : new Usage : my $obj = Bio::SearchIO::SearchResultEventBuilder->new(); Function: Builds a new Bio::SearchIO::SearchResultEventBuilder object Returns : Bio::SearchIO::SearchResultEventBuilder Args : -hsp_factory => Bio::Factory::ObjectFactoryI -hit_factory => Bio::Factory::ObjectFactoryI -result_factory => Bio::Factory::ObjectFactoryI
See Bio::Factory::ObjectFactoryI for more information
Title : will_handle Usage : if( $handler->will_handle($event_type) ) { ... } Function: Tests if this event builder knows how to process a specific event Returns : boolean Args : event type name
Title : start_result Usage : $handler->start_result($resulttype) Function: Begins a result event cycle Returns : none Args : Type of Report
Title : end_result Usage : my @results = $parser->end_result Function: Finishes a result handler cycle Returns : A Bio::Search::Result::ResultI Args : none
Title : start_hsp Usage : $handler->start_hsp($name,$data) Function: Begins processing a HSP event Returns : none Args : type of element associated data (hashref)
Title : end_hsp Usage : $handler->end_hsp() Function: Finish processing a HSP event Returns : none Args : type of event and associated hashref
Title : start_hit Usage : $handler->start_hit() Function: Starts a Hit event cycle Returns : none Args : type of event and associated hashref
Title : end_hit Usage : $handler->end_hit() Function: Ends a Hit event cycle Returns : Bio::Search::Hit::HitI object Args : type of event and associated hashref
Title : register_factory Usage : $handler->register_factory('TYPE',$factory); Function: Register a specific factory for a object type class Returns : none Args : string representing the class and Bio::Factory::ObjectFactoryI
Title : factory Usage : my $f = $handler->factory('TYPE'); Function: Retrieves the associated factory for requested 'TYPE' Returns : a Bio::Factory::ObjectFactoryI Throws : Bio::Root::BadParameter if none registered for the supplied type Args : name of factory class to retrieve
See Bio::SearchIO::blast::inclusion_threshold.
To install Bio::Seq, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Seq
CPAN shell
perl -MCPAN -e shell install Bio::Seq
For more information on module installation, please visit the detailed CPAN module installation guide.