Bio::Seq::SeqFactory(3User Contributed Perl DocumentatiBio::Seq::SeqFactory(3)NAMEBio::Seq::SeqFactory - Instantiates a new Bio::PrimarySeqI (or derived
class) through a factory
SYNOPSIS
use Bio::Seq::SeqFactory;
my $factory = Bio::Seq::SeqFactory->new();
my $seq = $factory->create(-seq => 'WYRAVLC',
-id => 'name');
# If you want the factory to create Bio::Seq objects instead
# of the default Bio::PrimarySeq objects, use the -type parameter:
my $factory = Bio::Seq::SeqFactory->new(-type => 'Bio::Seq');
DESCRIPTION
This object will build Bio::PrimarySeqI and Bio::SeqI objects
generically.
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@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::Seq::SeqFactory->new();
Function: Builds a new Bio::Seq::SeqFactory object
Returns : Bio::Seq::SeqFactory
Args : -type => string, name of a PrimarySeqI derived class
This is optional. Default=Bio::PrimarySeq.
create
Title : create
Usage : my $seq = $seqbuilder->create(-seq => 'CAGT', -id => 'name');
Function: Instantiates new Bio::SeqI (or one of its child classes)
This object allows us to genericize the instantiation of sequence
objects.
Returns : Bio::PrimarySeq object (default)
The return type is configurable using new(-type =>"...").
Args : initialization parameters specific to the type of sequence
object we want. Typically
-seq => $str,
-display_id => $name
type
Title : type
Usage : $obj->type($newval)
Function:
Returns : value of type
Args : newvalue (optional)
perl v5.14.1 2011-07-22 Bio::Seq::SeqFactory(3)
