Bio::Factory
SequenceFactoryI
Summary
Bio::Factory::SequenceFactoryI - This interface allows for generic building of sequences in factories which create sequences (like SeqIO)
Package variables
No package variables defined.
Included modules
Inherit
Synopsis
# do not use this object directly it is an interface
# get a
Bio::Factory::SequenceFactoryI object like
use Bio::Seq::SeqFactory;
my $seqbuilder = new Bio::Seq::SeqFactory('type' => 'Bio::PrimarySeq');
my $seq = $seqbuilder->create(-seq => 'ACTGAT',
-display_id => 'exampleseq');
print "seq is a ", ref($seq), "\n";
Description
A generic way to build Sequence objects via a pluggable factory. This
reduces the amount of code that looks like
if( $type eq 'Bio::PrimarySeq' ) { ... }
elsif( $type eq 'Bio::Seq::RichSeq' ) { ... }
Methods description
None available.
Methods code
No methods available.
General documentation
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/MailList.shtml - About the mailing lists
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| AUTHOR - Jason Stajich | Top |
Email jason-at-bioperl.org
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
Title : create
Usage : my $seq = $seqbuilder->create(-seq => 'CAGT',
-id => 'name');
Function: Instantiates new Bio::PrimarySeqI (or one of its child classes)
This object allows us to genericize the instantiation of sequence
objects.
Returns : Bio::PrimarySeqI
Args : initialization parameters specific to the type of sequence
object we want. Typically
-seq => $str,
-display_id => $name