/ 
bioperl-1.0.2
/ Bio::Seq::RichSeqI

NAME

Bio::Seq::RichSeqI - RichSeq interface, mainly for database orientated sequences

SYNOPSIS

@secondary   = $richseq->get_secondary_accessions;
$division    = $richseq->division;
$mol         = $richseq->molecule;
@dates       = $richseq->get_dates; 
$seq_version = $richseq->seq_version;  
$pid         = $richseq->pid;
$keywords    = $richseq->keywords;

DESCRIPTION

This interface extends the Bio::SeqI interface to give additional functionality to sequences with richer data sources, in particular from database sequences (EMBL, GenBank and Swissprot).

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 one of the Bioperl mailing lists. Your participation is much appreciated.

bioperl-l@bioperl.org                 - General discussion
http://bio.perl.org/MailList.html             - About the mailing lists

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via email or the web:

bioperl-bugs@bio.perl.org
http://bio.perl.org/bioperl-bugs/

AUTHOR - Ewan Birney

Email birney@ebi.ac.uk

Describe contact details here

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

get_secondary_accessions

Title   : get_secondary_accessions
Usage   : 
Function: Get the secondary accessions for a sequence.
Example :
Returns : an array of strings
Args    : none

division

Title   : division
Usage   :
Function: Get (and set, depending on the implementation) the divison for
          a sequence.

          Examples from GenBank are PLN (plants), PRI (primates), etc.
Example :
Returns : a string
Args    :

molecule

Title   : molecule
Usage   :
Function: Get (and set, depending on the implementation) the molecule
          type for the sequence.

          This is not necessarily the same as Bio::PrimarySeqI::alphabet(),
          because it is databank-specific.
Example :
Returns : a string
Args    :

pid

Title   : pid
Usage   :
Function: Get (and set, depending on the implementation) the PID property
          for the sequence.
Example :
Returns : a string
Args    :

get_dates

Title   : get_dates
Usage   :
Function: Get (and set, depending on the implementation) the dates the
          databank entry specified for the sequence
Example :
Returns : an array of strings
Args    :

seq_version

Title   : seq_version
Usage   :
Function: Get (and set, depending on the implementation) the version string
          of the sequence.
Example :
Returns : a string
Args    :

keywords

Title   : keywords
Usage   : $obj->keywords($newval)
Function: 
Returns : value of keywords (a string)
Args    : newvalue (optional) (a string)