Bio::DB::RandomAccessI(3)

NAME
Bio::DB::RandomAccessI - Abstract interface for a sequence database

SYNOPSIS
  #
  # get a database object somehow using a concrete class
  #
  $seq = $db->get_Seq_by_id('ROA1_HUMAN');
  #
  # $seq is a Bio::Seq object
  #

DESCRIPTION
This is a pure interface class - in other words, all this does is define methods which other (concrete) classes will actually implement.

The Bio::DB::RandomAccessI class defines what methods a generic database class should have. At the moment it is just the ability to make Bio::Seq objects from a name (id) or a accession number.

CONTACT
Ewan Birney originally wrote this class.

  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/

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

  get_Seq_by_id
 Title   : get_Seq_by_id
 Usage   : $seq = $db->get_Seq_by_id('ROA1_HUMAN')
 Function: Gets a Bio::Seq object by its name
 Returns : a Bio::Seq object
 Args    : the id (as a string) of a sequence
 Throws  : "id does not exist" exception

  get_Seq_by_acc
 Title   : get_Seq_by_acc
 Usage   : $seq = $db->get_Seq_by_acc('X77802');
 Function: Gets a Bio::Seq object by accession number
 Returns : A Bio::Seq object
 Args    : accession number (as a string)
 Throws  : "acc does not exist" exception