Bio::EnsEMBL::Map QtlFeature
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Summary
Bio::EnsEMBL::Map::QtlFeature
Package variables
No package variables defined.
Included modules
Bio::EnsEMBL::Feature
Inherit
Bio::EnsEMBL::Feature
Synopsis
Description
Represents a QtlFeature in the EnsEMBL database. QtlFeatures are
generally very long and its not clear wether a representation in Contig
coordinates actually makes sense. In the database they will have
chromosomal coordinates.
Methods
moveDescriptionCode
newDescriptionCode
qtlDescriptionCode
strandDescriptionCode
Methods description
movecode    nextTop
  Arg [1]    : $start - The new end of this qtl feature
  Arg [2]    : $end - The new start of this qtl feature
  Arg [3]    : $strand - ignored always set to 0
  Example    : $qtl_feat->move(1, 10_000);
  Description: Overrides superclass move() method to ensure strand is always 0.
               See Bio::EnsEMBL::Feature::move
  Returntype : none
  Exceptions : none
  Caller     : general
  Status     : Stable
newcodeprevnextTop
  Arg [1]    : Bio::EnsEMBL::Map::DBSQL::QtlFeatureAdaptor $adaptor
  Example    : none
  Description: Create a QtlFeature
  Returntype : Bio::EnsEMBL::Map::QtlFeature
  Exceptions : none
  Caller     : general, DBSQL::QtlFeatureAdaptor
  Status     : Stable
qtlcodeprevnextTop
  Arg [1]    : Bio::EnsEMBL::Map::Qtl $qtl
               the qtl object for this feature
  Example    : none
  Description: return the Qtl object associated with this location
  Returntype : Bio::EnsEMBL::Map::Qtl
  Exceptions : none
  Caller     : general
  Status     : Stable
strandcodeprevnextTop
  Arg [1]    : none
	Example    : $strand = $qtl_feat->strand();
  Description: Overrides the Feature strand method to always return a
               value of 0 for qtl features (they are unstranded features)
  Returntype : int (always 0)
  Exceptions : none
  Caller     : general
  Status     : Stable
Methods code
movedescriptionprevnextTop
sub move {
  my ($self, $start, $end, $strand) = @_;

  #maintain a strandedness of 0
  return $self->SUPER::move($start,$end,0);
}



1;
}
newdescriptionprevnextTop
sub new {
  my ( $class, $adaptor, $slice, $start, $end, $qtl, $analysis ) = @_;

  $class = ref( $class ) ||$class;
  my $self = bless( {
		     'adaptor'  => $adaptor,
		     'slice'    => $slice,
		     'start'    => $start,
		     'end'      => $end,
		     'qtl'      => $qtl,
		     'analysis' => $analysis,
         'strand'   => 0
		    }, $class );

  return $self;
}
qtldescriptionprevnextTop
sub qtl {
  my $self = shift;

  if(@_) {
    $self->{'qtl'} = shift;
  }

  return $self->{'qtl'};
}
stranddescriptionprevnextTop
sub strand {
	my $self = shift;
  return 0;
}
General documentation
LICENSETop
  Copyright (c) 1999-2009 The European Bioinformatics Institute and
  Genome Research Limited.  All rights reserved.

  This software is distributed under a modified Apache license.
  For license details, please see

    /info/about/code_licence.html
CONTACTTop
  Please email comments or questions to the public Ensembl
  developers list at <ensembl-dev@ebi.ac.uk>.

  Questions may also be sent to the Ensembl help desk at
  <helpdesk@ensembl.org>.