GSP
Quick Navigator

Search Site

Unix VPS
A - Starter
B - Basic
C - Preferred
D - Commercial
MPS - Dedicated
Previous VPSs
* Sign Up! *

Support
Contact Us
Online Help
Handbooks
Domain Status
Man Pages

FAQ
Virtual Servers
Pricing
Billing
Technical

Network
Facilities
Connectivity
Topology Map

Miscellaneous
Server Agreement
Year 2038
Credits
 

USA Flag

 

 

Man Pages


Manual Reference Pages  -  BIO::SEQ::SEQFACTORY (3)

.ds Aq ’

NAME

Bio::Seq::SeqFactory - Instantiation of generic Bio::PrimarySeqI (or derived) objects through a factory

CONTENTS

SYNOPSIS



    use Bio::Seq::SeqFactory;
    my $factory = Bio::Seq::SeqFactory->new();
    my $primaryseq = $factory->create( -seq => WYRAVLC,
                                       -id  => name     );

    # Create Bio::Seq instead of Bio::PrimarySeq objects:
    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:



  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::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)



Search for    or go to Top of page |  Section 3 |  Main Index


perl v5.20.3 BIO::SEQ::SEQFACTORY (3) 2016-04-05

Powered by GSP Visit the GSP FreeBSD Man Page Interface.
Output converted with manServer 1.07.