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