Bio::Factory::SequenceUseroContributed Perl DBio::Factory::SequenceFactoryI(3)NAMEBio::Factory::SequenceFactoryI - This interface allows for generic
building of sequences in factories which create sequences (like SeqIO)
SYNOPSIS
# do not use this object directly it is an interface # get a
Bio::Factory::SequenceFactoryI object like
use Bio::Seq::SeqFactory;
my $seqbuilder = Bio::Seq::SeqFactory->new('-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' ) { ... }
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:
http://bugzilla.open-bio.org/
AUTHOR - Jason Stajich
Email jason-at-bioperl.org
APPENDIX
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
create
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
perl v5.14.1 2011-07-22 Bio::Factory::SequenceFactoryI(3)
