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Summary

Bio::Graphics::Glyph::pinsertion - The "Drosophila P-element Insertion" glyph

Package variables

Included modules

Inherit

Bio::Graphics::Glyph::generic

Synopsis

  See Bio::Graphics::Panel and Bio::Graphics::Glyph.

Description

This glyph was designed to show P-element insertions in the Drosophila
genome, but in fact is suitable for any type of zero-width feature.
Also see the triangle glyph. In addition to the generic options, this glyph recognizes:

 Option Name       Description              Default
 -----------       -----------              -------

 -insertion_width  Width of glyph in pixels    3

Methods

Methods description

None available.

Methods code

sub box {

  my $self = shift;
  my $half = $self->insertion_width/2;
  return ($self->left-$half,$self->top,$self->right+$half,$self->bottom);

}

sub draw {

  my $self = shift;

  my $gd = shift;
  my ($left,$top) = @_;
  my ($x1,$y1,$x2,$y2) = $self->calculate_boundaries(@_);

  my $height = $self->height;

  my $half = $self->insertion_width/2;

  my $fill = $self->bgcolor;

  my $poly = GD::Polygon->new;

  if ($self->feature->strand > 0) { #plus strand
      $poly->addPt($x1 - $half, $y1);
      $poly->addPt($x1 + ($half), $y1);
      $poly->addPt($x1, $y2); #pointer down
  } else {
      $poly->addPt($x1, $y1); #pointer up
      $poly->addPt($x1 - $half, $y2);
      $poly->addPt($x1 + ($half), $y2);
  }
  $gd->filledPolygon($poly, $fill);
  $gd->polygon($poly, $fill);

  # add a label if requested
  $self->draw_label($gd,$left,$top)       if $self->option('label');
  $self->draw_description($gd,$left,$top) if $self->option('description');
}


1;

}

sub insertion_width {

  my $self = shift;
  return $self->option('insertion_width') || 6;
}

# override draw method

}

General documentation

Please report them.

Bio::Graphics::Panel,
Bio::Graphics::Glyph,
Bio::Graphics::Glyph::arrow,
Bio::Graphics::Glyph::cds,
Bio::Graphics::Glyph::crossbox,
Bio::Graphics::Glyph::diamond,
Bio::Graphics::Glyph::dna,
Bio::Graphics::Glyph::dot,
Bio::Graphics::Glyph::ellipse,
Bio::Graphics::Glyph::extending_arrow,
Bio::Graphics::Glyph::generic,
Bio::Graphics::Glyph::graded_segments,
Bio::Graphics::Glyph::heterogeneous_segments,
Bio::Graphics::Glyph::line,
Bio::Graphics::Glyph::pinsertion,
Bio::Graphics::Glyph::primers,
Bio::Graphics::Glyph::rndrect,
Bio::Graphics::Glyph::segments,
Bio::Graphics::Glyph::ruler_arrow,
Bio::Graphics::Glyph::toomany,
Bio::Graphics::Glyph::transcript,
Bio::Graphics::Glyph::transcript2,
Bio::Graphics::Glyph::translation,
Bio::Graphics::Glyph::triangle,
Bio::DB::GFF,
Bio::SeqI,
Bio::SeqFeatureI,
Bio::Das,
GD

Allen Day <day@cshl.org>, Shengqiang Shu <sshu@bdgp.lbl.gov>
Copyright (c) 2001 Cold Spring Harbor Laboratory, BDGP
This library is free software; you can redistribute it and/or modify
it under the same terms as Perl itself. See DISCLAIMER.txt for
disclaimers of warranty.