NAME¶
Bio::Graphics::Glyph::ruler_arrow - glyph for drawing an arrow as ruler (5' and
3' are marked as label)
SYNOPSIS¶
See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.
DESCRIPTION¶
This glyph draws arrows. Label, if requested, will be 5' and 3' at both ends and
tick scale is printed if no_tick_label option is set and tick option set.
Depending on options, the arrows can be labeled, be oriented vertically or
horizontally, or can contain major and minor ticks suitable for use as a
scale.
OPTIONS¶
In addition to the common options, the following glyph-specific options are
recognized:
Option Description Default
------ ----------- -------
-tick Whether to draw major 0
and minor ticks.
0 = no ticks
1 = major ticks
2 = minor ticks
-label 5' at start, 3' at end 0
above arrow
-both 5', 3' above, 0
and 3', 5' below arrow
-direction 0 = ruler is plus strand 0
-1 = ruler is minus strand
-parallel Whether to draw the arrow true
parallel to the sequence
or perpendicular to it.
-northeast Force a north or east true
arrowhead(depending
on orientation)
-east synonym of above
-southwest Force a south or west true
arrowhead(depending
on orientation)
-west synonym of above
-double force-doubleheaded arrow
-base Draw a vertical base at the false
non-arrowhead side
-scale Reset the labels on the arrow false
to reflect an externally
established scale.
Set -parallel to false to display a point-like feature such as a polymorphism,
or to indicate an important location. If the feature start == end, then the
glyph will draw a single arrow at the designated location:
^
|
Otherwise, there will be two arrows at the start and end:
^ ^
| |
Scale: Pass in a externally established scale to reset the labels on the arrow.
This is particularly useful for manually constructed images where the founding
parameters of the panel are not 1-based. For example, a genetic map interval
ranging from 0.1 - 0.3 can be constructed by first multiplying every value by
100. Passing
arrow(-scale=>100);
will draw tick marks labelled appropriately to your external scale.
BUGS¶
Please report them.
SEE ALSO¶
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
AUTHOR¶
Shengqiang Shu <sshu@bdgp.lbl.gov> Lincoln Stein <lstein@cshl.org>.
Copyright (c) 2001 BDGP, Cold Spring Harbor Laboratory
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.