NAME

  Bio::DOOP::DOOP - DOOP API main module

VERSION

Version 0.07

SYNOPSIS

  use Bio::DOOP::DOOP;

  $db = Bio::DOOP::DBSQL->new("doopuser","dooppass","doop_1_5","localhost");
  $cluster = Bio::DOOP::Cluster->new($db,"8010109","500");
  @seqs = @{$cluster->get_all_seqs};
  foreach $seq (@seqs){
     print $seq->seq,"\n";
  }

DESCRIPTION

  DOOP is a database containing orthologous clusters of promoters from Homo sapiens, 
  Arabidopsis thaliana and other organisms. Visit the http://doop.abc.hu/ for more 
  information.
  This is a container module for all the DOOP modules.
  You can simply use this module to access all DOOP objects.
  For more help, please see the documentation of the individual
  objects.

AUTHOR

  Tibor Nagy, Godollo, Hungary

OBJECTS

Bio::DOOP::DBSQL

  Object for simple SQL querys

Bio::DOOP::Cluster

  Object for the clusters

Bio::DOOP::ClusterSubset

  Object for the set of sequences that is smaller (or equal) than the cluster itself.

Bio::DOOP::Sequence

  Object for the cluster (or cluster subset) sequences.

Bio::DOOP::SequenceFeature

  Object for the special annotation of the sequences.

Bio::DOOP::Motif

  Object for the conserved regulatory elements.

Bio::DOOP::Util::Search

  Module for some useful searching subrutine.

COPYRIGHT & LICENSE

Copyright 2006 Tibor Nagy, all rights reserved.

This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself.