Raw content of Bio::Graphics::Glyph::splice_site
<![CDATA[package Bio::Graphics::Glyph::splice_site;
use strict;
use vars '@ISA';
@ISA = 'Bio::Graphics::Glyph::generic';
use Bio::Graphics::Glyph::generic;
use constant PWIDTH => 3;
sub draw_component {
my $self = shift;
my $gd = shift;
my ($left,$top) = @_;
my($x1,$y1,$x2,$y2) = $self->bounds(@_);
my $center = int(0.5+($x1+$x2)/2);
my $direction = $self->option('direction');
my $height = $y2 - $y1;
my $fraction = $self->option('height_fraction') || 1.0;
my $bottom = $y2;
$top = $y2 - $fraction * $height;
# draw the base
my $fgcolor = $self->fgcolor;
$gd->line($center,$bottom,$center,$top,$fgcolor);
if ($direction eq 'right') {
$gd->line($center,$top,$center + PWIDTH,$top,$fgcolor);
} elsif ($direction eq 'left') {
$gd->line($center,$top,$center - PWIDTH,$top,$fgcolor);
}
}
1;
=head1 NAME
Bio::Graphics::Glyph::splice_site - The "splice_site" glyph
=head1 SYNOPSIS
See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.
=head1 DESCRIPTION
This glyph was designed to show an inverted "L" representing splice
donors and acceptors. The vertical part of the L points downwards and
is positioned in the center of the range (even if the range is quite
large).
In addition to the usual glyph options, this glyph recognizes:
Option Value Description
------ ----- -----------
direction "left" or "right" direction the short part of the L
points
height_fraction 0.0 - 1.0 fractional height of the glyph,
usually a callback that uses the
feature's score to determine its
height
=head1 BUGS
Please report them.
=head1 SEE ALSO
L<Bio::Graphics::Panel>,
L<Bio::Graphics::Glyph>,
L<Bio::Graphics::Glyph::arrow>,
L<Bio::Graphics::Glyph::cds>,
L<Bio::Graphics::Glyph::crossbox>,
L<Bio::Graphics::Glyph::diamond>,
L<Bio::Graphics::Glyph::dna>,
L<Bio::Graphics::Glyph::dot>,
L<Bio::Graphics::Glyph::ellipse>,
L<Bio::Graphics::Glyph::extending_arrow>,
L<Bio::Graphics::Glyph::generic>,
L<Bio::Graphics::Glyph::graded_segments>,
L<Bio::Graphics::Glyph::heterogeneous_segments>,
L<Bio::Graphics::Glyph::line>,
L<Bio::Graphics::Glyph::pinsertion>,
L<Bio::Graphics::Glyph::primers>,
L<Bio::Graphics::Glyph::rndrect>,
L<Bio::Graphics::Glyph::chromosome>,
L<Bio::Graphics::Glyph::segments>,
L<Bio::Graphics::Glyph::ruler_arrow>,
L<Bio::Graphics::Glyph::toomany>,
L<Bio::Graphics::Glyph::transcript>,
L<Bio::Graphics::Glyph::transcript2>,
L<Bio::Graphics::Glyph::translation>,
L<Bio::Graphics::Glyph::triangle>,
L<Bio::DB::GFF>,
L<Bio::SeqI>,
L<Bio::SeqFeatureI>,
L<Bio::Das>,
L<GD>
=head1 AUTHOR
Xiaokang Pan E<lt>pan@cshl.orgE<gt>
Copyright (c) 2001 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.
=cut
]]>