NAME

  Bio::DOOP::Motif - DOOP database conserved motif object

VERSION

Version 0.06

SYNOPSIS

  use Bio::DOOP::Motif;

  $db = Bio::DOOP::DBSQL->connect("user","pass","somewhere.where.org");
  my $motif = Bio::DOOP::Motif->new($db,"160945"); # This is the motif primary id
  print $motif->seq,":",$motif->start," ",$motif->end,"\n";

DESCRIPTION

  This package represent the conserved motifs.
  You shoud not use directly the constructor but
  some times it is useful. Most of the cases you
  get this object from other objects.

AUTHOR

  Tibor Nagy, Godollo, Hungary

METHODS

new

  Create the new objects from the primary id.
  It has two arguments: the connected database identifier and the primary id

type

  Return the type of the motif

seq

  Return the consensus sequence of the motif (string)

start

  Return the start position of the motif

end

  Return the end position of the motif

length

  Return the length of the motif

get_id

  Return the motif MySQL primary id

get_block

  Return the motif block. Not yet implemented

get_matrix

  Return the motif matrix. Not yet implemented

get_logo

  Return the motif logo. Not yet implemented

get_subset_id

  Return the motif subset primary id. It is used by internal processes

cpanm Bio::DOOP::DOOP

perl -MCPAN -e shell
install Bio::DOOP::DOOP